diff --git a/mendelian_traits_matched_9/AUROC_by_chrom/all/Borzoi.LogisticRegression.chrom.csv b/mendelian_traits_matched_9/AUROC_by_chrom/all/Borzoi.LogisticRegression.chrom.csv new file mode 100644 index 0000000000000000000000000000000000000000..dc570fb42641e9feadce58a21a63abd5cc4016d5 --- /dev/null +++ b/mendelian_traits_matched_9/AUROC_by_chrom/all/Borzoi.LogisticRegression.chrom.csv @@ -0,0 +1,20 @@ +chrom,n,Model,AUROC +1,210,Borzoi.LogisticRegression.chrom,0.781557067271353 +2,230,Borzoi.LogisticRegression.chrom,0.785549254358328 +3,310,Borzoi.LogisticRegression.chrom,0.9140941149265811 +5,20,Borzoi.LogisticRegression.chrom,0.2777777777777778 +6,30,Borzoi.LogisticRegression.chrom,0.9753086419753088 +7,210,Borzoi.LogisticRegression.chrom,0.7923910304862686 +8,70,Borzoi.LogisticRegression.chrom,0.7369614512471655 +9,240,Borzoi.LogisticRegression.chrom,0.8751929012345678 +10,190,Borzoi.LogisticRegression.chrom,0.7180670975684826 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b/mendelian_traits_matched_9/AUROC_by_chrom/all/CADD+Borzoi.LogisticRegression.chrom.csv new file mode 100644 index 0000000000000000000000000000000000000000..97ce95ba6fd447fc59f01fb998f95b69ab6c6c8e --- /dev/null +++ b/mendelian_traits_matched_9/AUROC_by_chrom/all/CADD+Borzoi.LogisticRegression.chrom.csv @@ -0,0 +1,20 @@ +chrom,n,Model,AUROC +1,210,CADD+Borzoi.LogisticRegression.chrom,0.7928949357520786 +2,230,CADD+Borzoi.LogisticRegression.chrom,0.9374081075404327 +3,310,CADD+Borzoi.LogisticRegression.chrom,0.9416117470227773 +5,20,CADD+Borzoi.LogisticRegression.chrom,0.9444444444444444 +6,30,CADD+Borzoi.LogisticRegression.chrom,0.4814814814814815 +7,210,CADD+Borzoi.LogisticRegression.chrom,0.9556563366087175 +8,70,CADD+Borzoi.LogisticRegression.chrom,0.8503401360544217 +9,240,CADD+Borzoi.LogisticRegression.chrom,0.9637345679012346 +10,190,CADD+Borzoi.LogisticRegression.chrom,0.9458294859956909 +11,480,CADD+Borzoi.LogisticRegression.chrom,0.8029996141975307 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a/mendelian_traits_matched_9/AUROC_by_chrom/all/CADD.LogisticRegression.chrom.csv b/mendelian_traits_matched_9/AUROC_by_chrom/all/CADD.LogisticRegression.chrom.csv new file mode 100644 index 0000000000000000000000000000000000000000..059cae191c9cf63e764bcb76b4a2c5573f3cb3da --- /dev/null +++ b/mendelian_traits_matched_9/AUROC_by_chrom/all/CADD.LogisticRegression.chrom.csv @@ -0,0 +1,20 @@ +chrom,n,Model,AUROC +1,210,CADD.LogisticRegression.chrom,0.9027462836986646 +2,230,CADD.LogisticRegression.chrom,0.9947490023104391 +3,310,CADD.LogisticRegression.chrom,0.9968782518210197 +5,20,CADD.LogisticRegression.chrom,0.9444444444444444 +6,30,CADD.LogisticRegression.chrom,0.7901234567901234 +7,210,CADD.LogisticRegression.chrom,0.9934492315444696 +8,70,CADD.LogisticRegression.chrom,1.0 +9,240,CADD.LogisticRegression.chrom,0.9892939814814814 +10,190,CADD.LogisticRegression.chrom,0.9233610341643583 +11,480,CADD.LogisticRegression.chrom,0.8959780092592593 +12,30,CADD.LogisticRegression.chrom,1.0 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b/mendelian_traits_matched_9/AUROC_by_chrom/all/Caduceus.LogisticRegression.chrom.csv @@ -0,0 +1,20 @@ +chrom,n,Model,AUROC +1,210,Caduceus.LogisticRegression.chrom,0.4920634920634921 +2,230,Caduceus.LogisticRegression.chrom,0.4209199747952111 +3,310,Caduceus.LogisticRegression.chrom,0.9236906000693722 +5,20,Caduceus.LogisticRegression.chrom,0.3611111111111111 +6,30,Caduceus.LogisticRegression.chrom,0.5925925925925926 +7,210,Caduceus.LogisticRegression.chrom,0.9259259259259259 +8,70,Caduceus.LogisticRegression.chrom,0.8276643990929704 +9,240,Caduceus.LogisticRegression.chrom,0.47530864197530864 +10,190,Caduceus.LogisticRegression.chrom,0.8193290243151738 +11,480,Caduceus.LogisticRegression.chrom,0.33043981481481477 +12,30,Caduceus.LogisticRegression.chrom,0.6049382716049383 +13,210,Caduceus.LogisticRegression.chrom,0.5512723607961703 +14,40,Caduceus.LogisticRegression.chrom,0.6597222222222222 +16,80,Caduceus.LogisticRegression.chrom,0.7430555555555556 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+5,20,Caduceus_Embeddings.minus.inner_product,0.6666666666666667 +6,30,Caduceus_Embeddings.minus.inner_product,0.5925925925925926 +7,210,Caduceus_Embeddings.minus.inner_product,0.6480221718316956 +8,70,Caduceus_Embeddings.minus.inner_product,0.24036281179138325 +9,240,Caduceus_Embeddings.minus.inner_product,0.7476851851851851 +10,190,Caduceus_Embeddings.minus.inner_product,0.42659279778393355 +11,480,Caduceus_Embeddings.minus.inner_product,0.3065682870370371 +12,30,Caduceus_Embeddings.minus.inner_product,0.8024691358024691 +13,210,Caduceus_Embeddings.minus.inner_product,0.599647266313933 +14,40,Caduceus_Embeddings.minus.inner_product,0.3888888888888889 +16,80,Caduceus_Embeddings.minus.inner_product,0.8680555555555556 +17,60,Caduceus_Embeddings.minus.inner_product,0.5802469135802469 +19,400,Caduceus_Embeddings.minus.inner_product,0.6429166666666667 +20,50,Caduceus_Embeddings.minus.inner_product,0.5599999999999999 +22,20,Caduceus_Embeddings.minus.inner_product,0.11111111111111116 +X,500,Caduceus_Embeddings.minus.inner_product,0.3831555555555555 diff --git a/mendelian_traits_matched_9/AUROC_by_chrom/all/Caduceus_Embeddings.plus.cosine_distance.csv b/mendelian_traits_matched_9/AUROC_by_chrom/all/Caduceus_Embeddings.plus.cosine_distance.csv new file mode 100644 index 0000000000000000000000000000000000000000..0dae4ed40ae727ca1150f153524bede8fc3bcfc1 --- /dev/null +++ b/mendelian_traits_matched_9/AUROC_by_chrom/all/Caduceus_Embeddings.plus.cosine_distance.csv @@ -0,0 +1,20 @@ +chrom,n,Model,AUROC +1,210,Caduceus_Embeddings.plus.cosine_distance,0.5776014109347444 +2,230,Caduceus_Embeddings.plus.cosine_distance,0.7182314639781558 +3,310,Caduceus_Embeddings.plus.cosine_distance,0.5766562608394034 +5,20,Caduceus_Embeddings.plus.cosine_distance,0.5555555555555556 +6,30,Caduceus_Embeddings.plus.cosine_distance,0.6358024691358025 +7,210,Caduceus_Embeddings.plus.cosine_distance,0.6216931216931219 +8,70,Caduceus_Embeddings.plus.cosine_distance,0.4489795918367347 +9,240,Caduceus_Embeddings.plus.cosine_distance,0.48148148148148145 +10,190,Caduceus_Embeddings.plus.cosine_distance,0.417513080947984 +11,480,Caduceus_Embeddings.plus.cosine_distance,0.5022907021604939 +12,30,Caduceus_Embeddings.plus.cosine_distance,0.41358024691358025 +13,210,Caduceus_Embeddings.plus.cosine_distance,0.2792894935752078 +14,40,Caduceus_Embeddings.plus.cosine_distance,0.6874999999999999 +16,80,Caduceus_Embeddings.plus.cosine_distance,0.6163194444444444 +17,60,Caduceus_Embeddings.plus.cosine_distance,0.5540123456790124 +19,400,Caduceus_Embeddings.plus.cosine_distance,0.5980902777777777 +20,50,Caduceus_Embeddings.plus.cosine_distance,0.5022222222222222 +22,20,Caduceus_Embeddings.plus.cosine_distance,0.6111111111111112 +X,500,Caduceus_Embeddings.plus.cosine_distance,0.5097777777777778 diff --git a/mendelian_traits_matched_9/AUROC_by_chrom/all/Caduceus_Embeddings.plus.euclidean_distance.csv b/mendelian_traits_matched_9/AUROC_by_chrom/all/Caduceus_Embeddings.plus.euclidean_distance.csv new file mode 100644 index 0000000000000000000000000000000000000000..4d1b4fa94312222c0a9625b158ad4b06407f9bb5 --- /dev/null +++ b/mendelian_traits_matched_9/AUROC_by_chrom/all/Caduceus_Embeddings.plus.euclidean_distance.csv @@ -0,0 +1,20 @@ +chrom,n,Model,AUROC +1,210,Caduceus_Embeddings.plus.euclidean_distance,0.5668934240362812 +2,230,Caduceus_Embeddings.plus.euclidean_distance,0.7021634110480991 +3,310,Caduceus_Embeddings.plus.euclidean_distance,0.5555555555555556 +5,20,Caduceus_Embeddings.plus.euclidean_distance,0.5555555555555556 +6,30,Caduceus_Embeddings.plus.euclidean_distance,0.6790123456790125 +7,210,Caduceus_Embeddings.plus.euclidean_distance,0.6051902242378433 +8,70,Caduceus_Embeddings.plus.euclidean_distance,0.48299319727891155 +9,240,Caduceus_Embeddings.plus.euclidean_distance,0.46219135802469136 +10,190,Caduceus_Embeddings.plus.euclidean_distance,0.41951369652200676 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b/mendelian_traits_matched_9/AUROC_by_chrom/all/Caduceus_LLR.minus.score.csv @@ -0,0 +1,20 @@ +chrom,n,Model,AUROC +1,210,Caduceus_LLR.minus.score,0.5385487528344672 +2,230,Caduceus_LLR.minus.score,0.5420079815164881 +3,310,Caduceus_LLR.minus.score,0.5894323043126373 +5,20,Caduceus_LLR.minus.score,0.08333333333333331 +6,30,Caduceus_LLR.minus.score,0.5185185185185185 +7,210,Caduceus_LLR.minus.score,0.4293272864701436 +8,70,Caduceus_LLR.minus.score,0.4319727891156463 +9,240,Caduceus_LLR.minus.score,0.558545524691358 +10,190,Caduceus_LLR.minus.score,0.5670975684826101 +11,480,Caduceus_LLR.minus.score,0.5433304398148148 +12,30,Caduceus_LLR.minus.score,0.5432098765432098 +13,210,Caduceus_LLR.minus.score,0.536785084404132 +14,40,Caduceus_LLR.minus.score,0.3680555555555556 +16,80,Caduceus_LLR.minus.score,0.3159722222222222 +17,60,Caduceus_LLR.minus.score,0.4876543209876543 +19,400,Caduceus_LLR.minus.score,0.5207986111111111 +20,50,Caduceus_LLR.minus.score,0.47555555555555556 +22,20,Caduceus_LLR.minus.score,0.2777777777777778 +X,500,Caduceus_LLR.minus.score,0.44906666666666667 diff --git a/mendelian_traits_matched_9/AUROC_by_chrom/all/Caduceus_absLLR.plus.score.csv b/mendelian_traits_matched_9/AUROC_by_chrom/all/Caduceus_absLLR.plus.score.csv new file mode 100644 index 0000000000000000000000000000000000000000..69011ef80c920c860c947154efa08330d56cf149 --- /dev/null +++ b/mendelian_traits_matched_9/AUROC_by_chrom/all/Caduceus_absLLR.plus.score.csv @@ -0,0 +1,20 @@ +chrom,n,Model,AUROC +1,210,Caduceus_absLLR.plus.score,0.5337616528092718 +2,230,Caduceus_absLLR.plus.score,0.22873345935727787 +3,310,Caduceus_absLLR.plus.score,0.4277951208232165 +5,20,Caduceus_absLLR.plus.score,0.3888888888888889 +6,30,Caduceus_absLLR.plus.score,0.20987654320987653 +7,210,Caduceus_absLLR.plus.score,0.42882338120433355 +8,70,Caduceus_absLLR.plus.score,0.24943310657596374 +9,240,Caduceus_absLLR.plus.score,0.4379822530864198 +10,190,Caduceus_absLLR.plus.score,0.32948599569098186 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100644 index 0000000000000000000000000000000000000000..d9b30ffeefe340a145ef285f5fb0a97f13faa9c6 --- /dev/null +++ b/mendelian_traits_matched_9/AUROC_by_chrom/all/GPN-MSA_Embeddings.minus.inner_product.csv @@ -0,0 +1,20 @@ +chrom,n,Model,AUROC +1,210,GPN-MSA_Embeddings.minus.inner_product,0.654320987654321 +2,230,GPN-MSA_Embeddings.minus.inner_product,0.8273471959672337 +3,310,GPN-MSA_Embeddings.minus.inner_product,0.760087871430223 +5,20,GPN-MSA_Embeddings.minus.inner_product,0.75 +6,30,GPN-MSA_Embeddings.minus.inner_product,0.6049382716049383 +7,210,GPN-MSA_Embeddings.minus.inner_product,0.9032501889644746 +8,70,GPN-MSA_Embeddings.minus.inner_product,0.746031746031746 +9,240,GPN-MSA_Embeddings.minus.inner_product,0.9255401234567902 +10,190,GPN-MSA_Embeddings.minus.inner_product,0.5484764542936288 +11,480,GPN-MSA_Embeddings.minus.inner_product,0.7387393904320988 +12,30,GPN-MSA_Embeddings.minus.inner_product,0.9012345679012346 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+22,20,GPN-MSA_Embeddings.plus.euclidean_distance,0.8055555555555556 +X,500,GPN-MSA_Embeddings.plus.euclidean_distance,0.8047111111111112 diff --git a/mendelian_traits_matched_9/AUROC_by_chrom/all/GPN-MSA_LLR.minus.score.csv b/mendelian_traits_matched_9/AUROC_by_chrom/all/GPN-MSA_LLR.minus.score.csv new file mode 100644 index 0000000000000000000000000000000000000000..9b6ac0a18df1900dd020b94b9ae9cdec5a0f06d3 --- /dev/null +++ b/mendelian_traits_matched_9/AUROC_by_chrom/all/GPN-MSA_LLR.minus.score.csv @@ -0,0 +1,20 @@ +chrom,n,Model,AUROC +1,210,GPN-MSA_LLR.minus.score,0.8034769463340892 +2,230,GPN-MSA_LLR.minus.score,0.9443394244906533 +3,310,GPN-MSA_LLR.minus.score,0.9225343970401203 +5,20,GPN-MSA_LLR.minus.score,0.7222222222222222 +6,30,GPN-MSA_LLR.minus.score,0.6296296296296295 +7,210,GPN-MSA_LLR.minus.score,0.9599395313681027 +8,70,GPN-MSA_LLR.minus.score,0.9070294784580498 +9,240,GPN-MSA_LLR.minus.score,0.9168595679012346 +10,190,GPN-MSA_LLR.minus.score,0.8076331178824254 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b/mendelian_traits_matched_9/AUROC_by_chrom/all/GPN_final.LogisticRegression.chrom.csv new file mode 100644 index 0000000000000000000000000000000000000000..3e953abb7a0b56cdd42a1b01d397e560e64afc83 --- /dev/null +++ b/mendelian_traits_matched_9/AUROC_by_chrom/all/GPN_final.LogisticRegression.chrom.csv @@ -0,0 +1,20 @@ +chrom,n,Model,AUROC +1,210,GPN_final.LogisticRegression.chrom,0.652557319223986 +2,230,GPN_final.LogisticRegression.chrom,0.9073724007561437 +3,310,GPN_final.LogisticRegression.chrom,0.6873627008902763 +5,20,GPN_final.LogisticRegression.chrom,0.4166666666666667 +6,30,GPN_final.LogisticRegression.chrom,0.8518518518518519 +7,210,GPN_final.LogisticRegression.chrom,0.8697404887881078 +8,70,GPN_final.LogisticRegression.chrom,0.6439909297052154 +9,240,GPN_final.LogisticRegression.chrom,0.4849537037037037 +10,190,GPN_final.LogisticRegression.chrom,0.5869498307171437 +11,480,GPN_final.LogisticRegression.chrom,0.8644386574074073 +12,30,GPN_final.LogisticRegression.chrom,0.8641975308641975 +13,210,GPN_final.LogisticRegression.chrom,0.7288989669942051 +14,40,GPN_final.LogisticRegression.chrom,0.7847222222222222 +16,80,GPN_final.LogisticRegression.chrom,0.5972222222222222 +17,60,GPN_final.LogisticRegression.chrom,0.7993827160493827 +19,400,GPN_final.LogisticRegression.chrom,0.9595138888888889 +20,50,GPN_final.LogisticRegression.chrom,0.9511111111111111 +22,20,GPN_final.LogisticRegression.chrom,0.8333333333333334 +X,500,GPN_final.LogisticRegression.chrom,0.6849333333333334 diff --git a/mendelian_traits_matched_9/AUROC_by_chrom/all/GPN_final_Embeddings.minus.inner_product.csv b/mendelian_traits_matched_9/AUROC_by_chrom/all/GPN_final_Embeddings.minus.inner_product.csv new file mode 100644 index 0000000000000000000000000000000000000000..d8ac6a8f62b53b70975dcb159a013cda896675e7 --- /dev/null +++ b/mendelian_traits_matched_9/AUROC_by_chrom/all/GPN_final_Embeddings.minus.inner_product.csv @@ -0,0 +1,20 @@ +chrom,n,Model,AUROC +1,210,GPN_final_Embeddings.minus.inner_product,0.5054169816074578 +2,230,GPN_final_Embeddings.minus.inner_product,0.7429111531190927 +3,310,GPN_final_Embeddings.minus.inner_product,0.5493120591975951 +5,20,GPN_final_Embeddings.minus.inner_product,0.08333333333333337 +6,30,GPN_final_Embeddings.minus.inner_product,0.2469135802469136 +7,210,GPN_final_Embeddings.minus.inner_product,0.7561098513479466 +8,70,GPN_final_Embeddings.minus.inner_product,0.5374149659863945 +9,240,GPN_final_Embeddings.minus.inner_product,0.6572145061728395 +10,190,GPN_final_Embeddings.minus.inner_product,0.6454293628808864 +11,480,GPN_final_Embeddings.minus.inner_product,0.29142554012345684 +12,30,GPN_final_Embeddings.minus.inner_product,0.19753086419753085 +13,210,GPN_final_Embeddings.minus.inner_product,0.44721592340639965 +14,40,GPN_final_Embeddings.minus.inner_product,0.4097222222222222 +16,80,GPN_final_Embeddings.minus.inner_product,0.6197916666666666 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+22,20,GPN_final_Embeddings.plus.cosine_distance,0.9444444444444444 +X,500,GPN_final_Embeddings.plus.cosine_distance,0.6855111111111112 diff --git a/mendelian_traits_matched_9/AUROC_by_chrom/all/GPN_final_Embeddings.plus.euclidean_distance.csv b/mendelian_traits_matched_9/AUROC_by_chrom/all/GPN_final_Embeddings.plus.euclidean_distance.csv new file mode 100644 index 0000000000000000000000000000000000000000..9d35dafafbf8653fc94b9e62d9a96cd28789effa --- /dev/null +++ b/mendelian_traits_matched_9/AUROC_by_chrom/all/GPN_final_Embeddings.plus.euclidean_distance.csv @@ -0,0 +1,20 @@ +chrom,n,Model,AUROC +1,210,GPN_final_Embeddings.plus.euclidean_distance,0.6336608717561099 +2,230,GPN_final_Embeddings.plus.euclidean_distance,0.6017643352236925 +3,310,GPN_final_Embeddings.plus.euclidean_distance,0.3625852699734073 +5,20,GPN_final_Embeddings.plus.euclidean_distance,1.0 +6,30,GPN_final_Embeddings.plus.euclidean_distance,0.8148148148148149 +7,210,GPN_final_Embeddings.plus.euclidean_distance,0.6696900982615268 +8,70,GPN_final_Embeddings.plus.euclidean_distance,0.49206349206349204 +9,240,GPN_final_Embeddings.plus.euclidean_distance,0.3221450617283951 +10,190,GPN_final_Embeddings.plus.euclidean_distance,0.4813788858110188 +11,480,GPN_final_Embeddings.plus.euclidean_distance,0.7267554012345679 +12,30,GPN_final_Embeddings.plus.euclidean_distance,0.8024691358024691 +13,210,GPN_final_Embeddings.plus.euclidean_distance,0.7860922146636431 +14,40,GPN_final_Embeddings.plus.euclidean_distance,0.5833333333333334 +16,80,GPN_final_Embeddings.plus.euclidean_distance,0.7812499999999999 +17,60,GPN_final_Embeddings.plus.euclidean_distance,0.8271604938271605 +19,400,GPN_final_Embeddings.plus.euclidean_distance,0.714375 +20,50,GPN_final_Embeddings.plus.euclidean_distance,0.8755555555555555 +22,20,GPN_final_Embeddings.plus.euclidean_distance,0.9444444444444444 +X,500,GPN_final_Embeddings.plus.euclidean_distance,0.899688888888889 diff --git a/mendelian_traits_matched_9/AUROC_by_chrom/all/GPN_final_LLR.minus.score.csv b/mendelian_traits_matched_9/AUROC_by_chrom/all/GPN_final_LLR.minus.score.csv new file mode 100644 index 0000000000000000000000000000000000000000..ec141fbf150601189f0c32db3b3f87290e733aed --- /dev/null +++ b/mendelian_traits_matched_9/AUROC_by_chrom/all/GPN_final_LLR.minus.score.csv @@ -0,0 +1,20 @@ +chrom,n,Model,AUROC +1,210,GPN_final_LLR.minus.score,0.6477702191987906 +2,230,GPN_final_LLR.minus.score,0.6851501785339215 +3,310,GPN_final_LLR.minus.score,0.6834894207422824 +5,20,GPN_final_LLR.minus.score,0.2777777777777778 +6,30,GPN_final_LLR.minus.score,0.7530864197530864 +7,210,GPN_final_LLR.minus.score,0.5508944318468127 +8,70,GPN_final_LLR.minus.score,0.4308390022675737 +9,240,GPN_final_LLR.minus.score,0.5200617283950617 +10,190,GPN_final_LLR.minus.score,0.5857186826715912 +11,480,GPN_final_LLR.minus.score,0.7993827160493827 +12,30,GPN_final_LLR.minus.score,0.8395061728395062 +13,210,GPN_final_LLR.minus.score,0.7144116906021667 +14,40,GPN_final_LLR.minus.score,0.45833333333333337 +16,80,GPN_final_LLR.minus.score,0.42013888888888895 +17,60,GPN_final_LLR.minus.score,0.6759259259259259 +19,400,GPN_final_LLR.minus.score,0.9678472222222222 +20,50,GPN_final_LLR.minus.score,0.8799999999999999 +22,20,GPN_final_LLR.minus.score,0.75 +X,500,GPN_final_LLR.minus.score,0.8263333333333333 diff --git a/mendelian_traits_matched_9/AUROC_by_chrom/all/GPN_final_absLLR.plus.score.csv b/mendelian_traits_matched_9/AUROC_by_chrom/all/GPN_final_absLLR.plus.score.csv new file mode 100644 index 0000000000000000000000000000000000000000..27a66972f1ac4f2bab589ae8bae2c43226d8bb3d --- /dev/null +++ b/mendelian_traits_matched_9/AUROC_by_chrom/all/GPN_final_absLLR.plus.score.csv @@ -0,0 +1,20 @@ +chrom,n,Model,AUROC +1,210,GPN_final_absLLR.plus.score,0.5947341899722852 +2,230,GPN_final_absLLR.plus.score,0.4543163201008192 +3,310,GPN_final_absLLR.plus.score,0.5293675569429992 +5,20,GPN_final_absLLR.plus.score,0.7222222222222222 +6,30,GPN_final_absLLR.plus.score,0.5679012345679012 +7,210,GPN_final_absLLR.plus.score,0.5553036029226506 +8,70,GPN_final_absLLR.plus.score,0.45351473922902497 +9,240,GPN_final_absLLR.plus.score,0.3647762345679012 +10,190,GPN_final_absLLR.plus.score,0.4127423822714682 +11,480,GPN_final_absLLR.plus.score,0.7282503858024691 +12,30,GPN_final_absLLR.plus.score,0.7037037037037037 +13,210,GPN_final_absLLR.plus.score,0.6050642479213909 +14,40,GPN_final_absLLR.plus.score,0.6527777777777778 +16,80,GPN_final_absLLR.plus.score,0.5711805555555556 +17,60,GPN_final_absLLR.plus.score,0.845679012345679 +19,400,GPN_final_absLLR.plus.score,0.943611111111111 +20,50,GPN_final_absLLR.plus.score,0.8044444444444444 +22,20,GPN_final_absLLR.plus.score,0.6388888888888888 +X,500,GPN_final_absLLR.plus.score,0.7679777777777779 diff --git a/mendelian_traits_matched_9/AUROC_by_chrom/all/HyenaDNA.LogisticRegression.chrom.csv b/mendelian_traits_matched_9/AUROC_by_chrom/all/HyenaDNA.LogisticRegression.chrom.csv new file mode 100644 index 0000000000000000000000000000000000000000..f2b3c2c03789fa75c6e9fd5b978704f4f4f9079f --- /dev/null +++ b/mendelian_traits_matched_9/AUROC_by_chrom/all/HyenaDNA.LogisticRegression.chrom.csv @@ -0,0 +1,20 @@ +chrom,n,Model,AUROC +1,210,HyenaDNA.LogisticRegression.chrom,0.5487528344671202 +2,230,HyenaDNA.LogisticRegression.chrom,0.7078344885528249 +3,310,HyenaDNA.LogisticRegression.chrom,0.32535553243149495 +5,20,HyenaDNA.LogisticRegression.chrom,0.2777777777777778 +6,30,HyenaDNA.LogisticRegression.chrom,0.3703703703703704 +7,210,HyenaDNA.LogisticRegression.chrom,0.691358024691358 +8,70,HyenaDNA.LogisticRegression.chrom,0.4875283446712019 +9,240,HyenaDNA.LogisticRegression.chrom,0.390625 +10,190,HyenaDNA.LogisticRegression.chrom,0.5161588180978763 +11,480,HyenaDNA.LogisticRegression.chrom,0.5751832561728395 +12,30,HyenaDNA.LogisticRegression.chrom,0.4691358024691358 +13,210,HyenaDNA.LogisticRegression.chrom,0.5875535399344923 +14,40,HyenaDNA.LogisticRegression.chrom,0.4375 +16,80,HyenaDNA.LogisticRegression.chrom,0.7569444444444444 +17,60,HyenaDNA.LogisticRegression.chrom,0.5432098765432098 +19,400,HyenaDNA.LogisticRegression.chrom,0.6926388888888888 +20,50,HyenaDNA.LogisticRegression.chrom,0.5422222222222222 +22,20,HyenaDNA.LogisticRegression.chrom,0.3888888888888889 +X,500,HyenaDNA.LogisticRegression.chrom,0.6574222222222222 diff --git a/mendelian_traits_matched_9/AUROC_by_chrom/all/HyenaDNA_Embeddings.minus.inner_product.csv b/mendelian_traits_matched_9/AUROC_by_chrom/all/HyenaDNA_Embeddings.minus.inner_product.csv new file mode 100644 index 0000000000000000000000000000000000000000..5a04e745723869638313196bd7e133645325382d --- /dev/null +++ b/mendelian_traits_matched_9/AUROC_by_chrom/all/HyenaDNA_Embeddings.minus.inner_product.csv @@ -0,0 +1,20 @@ +chrom,n,Model,AUROC +1,210,HyenaDNA_Embeddings.minus.inner_product,0.4857646762408667 +2,230,HyenaDNA_Embeddings.minus.inner_product,0.8844780508296577 +3,310,HyenaDNA_Embeddings.minus.inner_product,0.23043126372991096 +5,20,HyenaDNA_Embeddings.minus.inner_product,0.3333333333333333 +6,30,HyenaDNA_Embeddings.minus.inner_product,0.8518518518518519 +7,210,HyenaDNA_Embeddings.minus.inner_product,0.8097757621567145 +8,70,HyenaDNA_Embeddings.minus.inner_product,0.6349206349206349 +9,240,HyenaDNA_Embeddings.minus.inner_product,0.7731481481481481 +10,190,HyenaDNA_Embeddings.minus.inner_product,0.6023391812865497 +11,480,HyenaDNA_Embeddings.minus.inner_product,0.4444444444444444 +12,30,HyenaDNA_Embeddings.minus.inner_product,0.5432098765432098 +13,210,HyenaDNA_Embeddings.minus.inner_product,0.6792642983119174 +14,40,HyenaDNA_Embeddings.minus.inner_product,0.45833333333333337 +16,80,HyenaDNA_Embeddings.minus.inner_product,0.7100694444444444 +17,60,HyenaDNA_Embeddings.minus.inner_product,0.3734567901234568 +19,400,HyenaDNA_Embeddings.minus.inner_product,0.6951388888888889 +20,50,HyenaDNA_Embeddings.minus.inner_product,0.48 +22,20,HyenaDNA_Embeddings.minus.inner_product,0.38888888888888884 +X,500,HyenaDNA_Embeddings.minus.inner_product,0.5125777777777778 diff --git a/mendelian_traits_matched_9/AUROC_by_chrom/all/HyenaDNA_Embeddings.plus.cosine_distance.csv b/mendelian_traits_matched_9/AUROC_by_chrom/all/HyenaDNA_Embeddings.plus.cosine_distance.csv new file mode 100644 index 0000000000000000000000000000000000000000..9b5812fd8c9b118a7d23fe8cb0e7a6cd4fd5685d --- /dev/null +++ b/mendelian_traits_matched_9/AUROC_by_chrom/all/HyenaDNA_Embeddings.plus.cosine_distance.csv @@ -0,0 +1,20 @@ +chrom,n,Model,AUROC +1,210,HyenaDNA_Embeddings.plus.cosine_distance,0.4454522549760645 +2,230,HyenaDNA_Embeddings.plus.cosine_distance,0.5287754673387943 +3,310,HyenaDNA_Embeddings.plus.cosine_distance,0.7141866111689212 +5,20,HyenaDNA_Embeddings.plus.cosine_distance,0.7500000000000001 +6,30,HyenaDNA_Embeddings.plus.cosine_distance,0.5 +7,210,HyenaDNA_Embeddings.plus.cosine_distance,0.20685311161501638 +8,70,HyenaDNA_Embeddings.plus.cosine_distance,0.30952380952380953 +9,240,HyenaDNA_Embeddings.plus.cosine_distance,0.33034336419753085 +10,190,HyenaDNA_Embeddings.plus.cosine_distance,0.6108033240997229 +11,480,HyenaDNA_Embeddings.plus.cosine_distance,0.5827305169753086 +12,30,HyenaDNA_Embeddings.plus.cosine_distance,0.2345679012345679 +13,210,HyenaDNA_Embeddings.plus.cosine_distance,0.4241622574955908 +14,40,HyenaDNA_Embeddings.plus.cosine_distance,0.5555555555555556 +16,80,HyenaDNA_Embeddings.plus.cosine_distance,0.265625 +17,60,HyenaDNA_Embeddings.plus.cosine_distance,0.44907407407407407 +19,400,HyenaDNA_Embeddings.plus.cosine_distance,0.3465625 +20,50,HyenaDNA_Embeddings.plus.cosine_distance,0.5777777777777778 +22,20,HyenaDNA_Embeddings.plus.cosine_distance,0.2777777777777778 +X,500,HyenaDNA_Embeddings.plus.cosine_distance,0.5174222222222222 diff --git a/mendelian_traits_matched_9/AUROC_by_chrom/all/HyenaDNA_Embeddings.plus.euclidean_distance.csv b/mendelian_traits_matched_9/AUROC_by_chrom/all/HyenaDNA_Embeddings.plus.euclidean_distance.csv new file mode 100644 index 0000000000000000000000000000000000000000..c9ec4af1ed2698a62500a65a1ae47a10be8237cc --- /dev/null +++ b/mendelian_traits_matched_9/AUROC_by_chrom/all/HyenaDNA_Embeddings.plus.euclidean_distance.csv @@ -0,0 +1,20 @@ +chrom,n,Model,AUROC +1,210,HyenaDNA_Embeddings.plus.euclidean_distance,0.4525069286974049 +2,230,HyenaDNA_Embeddings.plus.euclidean_distance,0.5091367359798361 +3,310,HyenaDNA_Embeddings.plus.euclidean_distance,0.7280610475199445 +5,20,HyenaDNA_Embeddings.plus.euclidean_distance,0.7500000000000001 +6,30,HyenaDNA_Embeddings.plus.euclidean_distance,0.4567901234567901 +7,210,HyenaDNA_Embeddings.plus.euclidean_distance,0.20256991685563114 +8,70,HyenaDNA_Embeddings.plus.euclidean_distance,0.30612244897959184 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mode 100644 index 0000000000000000000000000000000000000000..2d21d5161686fa788c99c4fd4127cbe0c5f7b61b --- /dev/null +++ b/mendelian_traits_matched_9/AUROC_by_chrom/all/HyenaDNA_LLR.minus.score.csv @@ -0,0 +1,20 @@ +chrom,n,Model,AUROC +1,210,HyenaDNA_LLR.minus.score,0.4896699420508944 +2,230,HyenaDNA_LLR.minus.score,0.4726948120142827 +3,310,HyenaDNA_LLR.minus.score,0.6414036304775119 +5,20,HyenaDNA_LLR.minus.score,0.3888888888888889 +6,30,HyenaDNA_LLR.minus.score,0.30864197530864196 +7,210,HyenaDNA_LLR.minus.score,0.6199294532627866 +8,70,HyenaDNA_LLR.minus.score,0.5317460317460316 +9,240,HyenaDNA_LLR.minus.score,0.4617091049382716 +10,190,HyenaDNA_LLR.minus.score,0.5160049245921823 +11,480,HyenaDNA_LLR.minus.score,0.4889322916666667 +12,30,HyenaDNA_LLR.minus.score,0.48148148148148145 +13,210,HyenaDNA_LLR.minus.score,0.5593348450491308 +14,40,HyenaDNA_LLR.minus.score,0.5347222222222222 +16,80,HyenaDNA_LLR.minus.score,0.4114583333333333 +17,60,HyenaDNA_LLR.minus.score,0.42901234567901236 +19,400,HyenaDNA_LLR.minus.score,0.49538194444444444 +20,50,HyenaDNA_LLR.minus.score,0.48444444444444446 +22,20,HyenaDNA_LLR.minus.score,0.3055555555555556 +X,500,HyenaDNA_LLR.minus.score,0.5074444444444445 diff --git a/mendelian_traits_matched_9/AUROC_by_chrom/all/HyenaDNA_absLLR.plus.score.csv b/mendelian_traits_matched_9/AUROC_by_chrom/all/HyenaDNA_absLLR.plus.score.csv new file mode 100644 index 0000000000000000000000000000000000000000..d5842ad453217287890f249d7cd1083281dc1354 --- /dev/null +++ b/mendelian_traits_matched_9/AUROC_by_chrom/all/HyenaDNA_absLLR.plus.score.csv @@ -0,0 +1,20 @@ +chrom,n,Model,AUROC +1,210,HyenaDNA_absLLR.plus.score,0.5381708238851096 +2,230,HyenaDNA_absLLR.plus.score,0.4154589371980676 +3,310,HyenaDNA_absLLR.plus.score,0.4721933171464909 +5,20,HyenaDNA_absLLR.plus.score,0.05555555555555558 +6,30,HyenaDNA_absLLR.plus.score,0.4938271604938272 +7,210,HyenaDNA_absLLR.plus.score,0.4821113630637439 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/dev/null +++ b/mendelian_traits_matched_9/AUROC_by_chrom/all/NucleotideTransformer.LogisticRegression.chrom.csv @@ -0,0 +1,20 @@ +chrom,n,Model,AUROC +1,210,NucleotideTransformer.LogisticRegression.chrom,0.6389518770471152 +2,230,NucleotideTransformer.LogisticRegression.chrom,0.7494223902541483 +3,310,NucleotideTransformer.LogisticRegression.chrom,0.7731529656607701 +5,20,NucleotideTransformer.LogisticRegression.chrom,0.5277777777777778 +6,30,NucleotideTransformer.LogisticRegression.chrom,0.5432098765432098 +7,210,NucleotideTransformer.LogisticRegression.chrom,0.6845553036029227 +8,70,NucleotideTransformer.LogisticRegression.chrom,0.7845804988662131 +9,240,NucleotideTransformer.LogisticRegression.chrom,0.1923225308641975 +10,190,NucleotideTransformer.LogisticRegression.chrom,0.5426285010772546 +11,480,NucleotideTransformer.LogisticRegression.chrom,0.6587577160493827 +12,30,NucleotideTransformer.LogisticRegression.chrom,0.580246913580247 +13,210,NucleotideTransformer.LogisticRegression.chrom,0.3867472915091963 +14,40,NucleotideTransformer.LogisticRegression.chrom,0.75 +16,80,NucleotideTransformer.LogisticRegression.chrom,0.5295138888888888 +17,60,NucleotideTransformer.LogisticRegression.chrom,0.35493827160493824 +19,400,NucleotideTransformer.LogisticRegression.chrom,0.8636805555555556 +20,50,NucleotideTransformer.LogisticRegression.chrom,0.6666666666666667 +22,20,NucleotideTransformer.LogisticRegression.chrom,0.41666666666666663 +X,500,NucleotideTransformer.LogisticRegression.chrom,0.33497777777777776 diff --git a/mendelian_traits_matched_9/AUROC_by_chrom/all/NucleotideTransformer_Embeddings.minus.inner_product.csv b/mendelian_traits_matched_9/AUROC_by_chrom/all/NucleotideTransformer_Embeddings.minus.inner_product.csv new file mode 100644 index 0000000000000000000000000000000000000000..1a992f456e239eee11b45fb73e14d47a6874995e --- /dev/null +++ b/mendelian_traits_matched_9/AUROC_by_chrom/all/NucleotideTransformer_Embeddings.minus.inner_product.csv @@ -0,0 +1,20 @@ +chrom,n,Model,AUROC +1,210,NucleotideTransformer_Embeddings.minus.inner_product,0.5240614764424288 +2,230,NucleotideTransformer_Embeddings.minus.inner_product,0.5939928586431422 +3,310,NucleotideTransformer_Embeddings.minus.inner_product,0.5837669094693028 +5,20,NucleotideTransformer_Embeddings.minus.inner_product,0.6388888888888888 +6,30,NucleotideTransformer_Embeddings.minus.inner_product,0.4938271604938272 +7,210,NucleotideTransformer_Embeddings.minus.inner_product,0.23129251700680273 +8,70,NucleotideTransformer_Embeddings.minus.inner_product,0.8798185941043085 +9,240,NucleotideTransformer_Embeddings.minus.inner_product,0.5852623456790124 +10,190,NucleotideTransformer_Embeddings.minus.inner_product,0.46937519236688213 +11,480,NucleotideTransformer_Embeddings.minus.inner_product,0.568287037037037 +12,30,NucleotideTransformer_Embeddings.minus.inner_product,0.8271604938271605 +13,210,NucleotideTransformer_Embeddings.minus.inner_product,0.6664147140337616 +14,40,NucleotideTransformer_Embeddings.minus.inner_product,0.5625 +16,80,NucleotideTransformer_Embeddings.minus.inner_product,0.4913194444444444 +17,60,NucleotideTransformer_Embeddings.minus.inner_product,0.5987654320987654 +19,400,NucleotideTransformer_Embeddings.minus.inner_product,0.7652083333333334 +20,50,NucleotideTransformer_Embeddings.minus.inner_product,0.6577777777777778 +22,20,NucleotideTransformer_Embeddings.minus.inner_product,0.8888888888888888 +X,500,NucleotideTransformer_Embeddings.minus.inner_product,0.2858222222222222 diff --git a/mendelian_traits_matched_9/AUROC_by_chrom/all/NucleotideTransformer_Embeddings.plus.cosine_distance.csv b/mendelian_traits_matched_9/AUROC_by_chrom/all/NucleotideTransformer_Embeddings.plus.cosine_distance.csv new file mode 100644 index 0000000000000000000000000000000000000000..4b974595b47ef964e034b62a598be8109b43aa49 --- /dev/null +++ b/mendelian_traits_matched_9/AUROC_by_chrom/all/NucleotideTransformer_Embeddings.plus.cosine_distance.csv @@ -0,0 +1,20 @@ +chrom,n,Model,AUROC +1,210,NucleotideTransformer_Embeddings.plus.cosine_distance,0.564877802973041 +2,230,NucleotideTransformer_Embeddings.plus.cosine_distance,0.8176853602184414 +3,310,NucleotideTransformer_Embeddings.plus.cosine_distance,0.3299803445485027 +5,20,NucleotideTransformer_Embeddings.plus.cosine_distance,0.8611111111111112 +6,30,NucleotideTransformer_Embeddings.plus.cosine_distance,0.7777777777777778 +7,210,NucleotideTransformer_Embeddings.plus.cosine_distance,0.6863189720332578 +8,70,NucleotideTransformer_Embeddings.plus.cosine_distance,0.4512471655328798 +9,240,NucleotideTransformer_Embeddings.plus.cosine_distance,0.5090663580246914 +10,190,NucleotideTransformer_Embeddings.plus.cosine_distance,0.5823330255463219 +11,480,NucleotideTransformer_Embeddings.plus.cosine_distance,0.7016059027777778 +12,30,NucleotideTransformer_Embeddings.plus.cosine_distance,0.6666666666666667 +13,210,NucleotideTransformer_Embeddings.plus.cosine_distance,0.519148400100781 +14,40,NucleotideTransformer_Embeddings.plus.cosine_distance,0.6180555555555556 +16,80,NucleotideTransformer_Embeddings.plus.cosine_distance,0.8611111111111112 +17,60,NucleotideTransformer_Embeddings.plus.cosine_distance,0.5925925925925926 +19,400,NucleotideTransformer_Embeddings.plus.cosine_distance,0.5736458333333333 +20,50,NucleotideTransformer_Embeddings.plus.cosine_distance,0.6177777777777778 +22,20,NucleotideTransformer_Embeddings.plus.cosine_distance,0.7777777777777778 +X,500,NucleotideTransformer_Embeddings.plus.cosine_distance,0.7359333333333332 diff --git a/mendelian_traits_matched_9/AUROC_by_chrom/all/NucleotideTransformer_Embeddings.plus.euclidean_distance.csv b/mendelian_traits_matched_9/AUROC_by_chrom/all/NucleotideTransformer_Embeddings.plus.euclidean_distance.csv new file mode 100644 index 0000000000000000000000000000000000000000..db5e980299aa6ab6130447aab12713b64a6ed418 --- /dev/null +++ b/mendelian_traits_matched_9/AUROC_by_chrom/all/NucleotideTransformer_Embeddings.plus.euclidean_distance.csv @@ -0,0 +1,20 @@ +chrom,n,Model,AUROC +1,210,NucleotideTransformer_Embeddings.plus.euclidean_distance,0.564877802973041 +2,230,NucleotideTransformer_Embeddings.plus.euclidean_distance,0.8149548414198696 +3,310,NucleotideTransformer_Embeddings.plus.euclidean_distance,0.3287085212163256 +5,20,NucleotideTransformer_Embeddings.plus.euclidean_distance,0.8611111111111112 +6,30,NucleotideTransformer_Embeddings.plus.euclidean_distance,0.7654320987654321 +7,210,NucleotideTransformer_Embeddings.plus.euclidean_distance,0.6994205089443184 +8,70,NucleotideTransformer_Embeddings.plus.euclidean_distance,0.42176870748299317 +9,240,NucleotideTransformer_Embeddings.plus.euclidean_distance,0.5023148148148149 +10,190,NucleotideTransformer_Embeddings.plus.euclidean_distance,0.5841797476146506 +11,480,NucleotideTransformer_Embeddings.plus.euclidean_distance,0.6995081018518519 +12,30,NucleotideTransformer_Embeddings.plus.euclidean_distance,0.6666666666666667 +13,210,NucleotideTransformer_Embeddings.plus.euclidean_distance,0.5162509448223734 +14,40,NucleotideTransformer_Embeddings.plus.euclidean_distance,0.5972222222222222 +16,80,NucleotideTransformer_Embeddings.plus.euclidean_distance,0.8645833333333334 +17,60,NucleotideTransformer_Embeddings.plus.euclidean_distance,0.5833333333333333 +19,400,NucleotideTransformer_Embeddings.plus.euclidean_distance,0.5504861111111111 +20,50,NucleotideTransformer_Embeddings.plus.euclidean_distance,0.6088888888888889 +22,20,NucleotideTransformer_Embeddings.plus.euclidean_distance,0.7777777777777778 +X,500,NucleotideTransformer_Embeddings.plus.euclidean_distance,0.7382666666666666 diff --git a/mendelian_traits_matched_9/AUROC_by_chrom/all/NucleotideTransformer_LLR.minus.score.csv b/mendelian_traits_matched_9/AUROC_by_chrom/all/NucleotideTransformer_LLR.minus.score.csv new file mode 100644 index 0000000000000000000000000000000000000000..bcddfc9c9c35184112ba21a11192c8e5e22b00d2 --- /dev/null +++ b/mendelian_traits_matched_9/AUROC_by_chrom/all/NucleotideTransformer_LLR.minus.score.csv @@ -0,0 +1,20 @@ +chrom,n,Model,AUROC +1,210,NucleotideTransformer_LLR.minus.score,0.5666414714033762 +2,230,NucleotideTransformer_LLR.minus.score,0.6397815584961142 +3,310,NucleotideTransformer_LLR.minus.score,0.6070065903572668 +5,20,NucleotideTransformer_LLR.minus.score,0.05555555555555558 +6,30,NucleotideTransformer_LLR.minus.score,0.5185185185185186 +7,210,NucleotideTransformer_LLR.minus.score,0.4142101284958428 +8,70,NucleotideTransformer_LLR.minus.score,0.34240362811791386 +9,240,NucleotideTransformer_LLR.minus.score,0.5318287037037037 +10,190,NucleotideTransformer_LLR.minus.score,0.5811018775007695 +11,480,NucleotideTransformer_LLR.minus.score,0.5995852623456791 +12,30,NucleotideTransformer_LLR.minus.score,0.5432098765432098 +13,210,NucleotideTransformer_LLR.minus.score,0.5875535399344923 +14,40,NucleotideTransformer_LLR.minus.score,0.3402777777777778 +16,80,NucleotideTransformer_LLR.minus.score,0.4409722222222222 +17,60,NucleotideTransformer_LLR.minus.score,0.5216049382716048 +19,400,NucleotideTransformer_LLR.minus.score,0.5384027777777778 +20,50,NucleotideTransformer_LLR.minus.score,0.4666666666666667 +22,20,NucleotideTransformer_LLR.minus.score,0.33333333333333337 +X,500,NucleotideTransformer_LLR.minus.score,0.46684444444444445 diff --git a/mendelian_traits_matched_9/AUROC_by_chrom/all/NucleotideTransformer_absLLR.plus.score.csv b/mendelian_traits_matched_9/AUROC_by_chrom/all/NucleotideTransformer_absLLR.plus.score.csv new file mode 100644 index 0000000000000000000000000000000000000000..bfda3030938e33ed776efd8eea5f640070ecf34c --- /dev/null +++ b/mendelian_traits_matched_9/AUROC_by_chrom/all/NucleotideTransformer_absLLR.plus.score.csv @@ -0,0 +1,20 @@ +chrom,n,Model,AUROC +1,210,NucleotideTransformer_absLLR.plus.score,0.5714285714285714 +2,230,NucleotideTransformer_absLLR.plus.score,0.40453686200378075 +3,310,NucleotideTransformer_absLLR.plus.score,0.45531275291941264 +5,20,NucleotideTransformer_absLLR.plus.score,0.4722222222222222 +6,30,NucleotideTransformer_absLLR.plus.score,0.345679012345679 +7,210,NucleotideTransformer_absLLR.plus.score,0.40312421264802223 +8,70,NucleotideTransformer_absLLR.plus.score,0.29024943310657597 +9,240,NucleotideTransformer_absLLR.plus.score,0.3472222222222222 +10,190,NucleotideTransformer_absLLR.plus.score,0.3795013850415513 +11,480,NucleotideTransformer_absLLR.plus.score,0.4986014660493827 +12,30,NucleotideTransformer_absLLR.plus.score,0.5555555555555556 +13,210,NucleotideTransformer_absLLR.plus.score,0.4464600655076846 +14,40,NucleotideTransformer_absLLR.plus.score,0.4583333333333333 +16,80,NucleotideTransformer_absLLR.plus.score,0.5850694444444444 +17,60,NucleotideTransformer_absLLR.plus.score,0.654320987654321 +19,400,NucleotideTransformer_absLLR.plus.score,0.3062152777777778 +20,50,NucleotideTransformer_absLLR.plus.score,0.2933333333333334 +22,20,NucleotideTransformer_absLLR.plus.score,0.0 +X,500,NucleotideTransformer_absLLR.plus.score,0.44084444444444437 diff --git a/mendelian_traits_matched_9/AUROC_by_chrom/all/Sei.LogisticRegression.chrom.csv b/mendelian_traits_matched_9/AUROC_by_chrom/all/Sei.LogisticRegression.chrom.csv new file mode 100644 index 0000000000000000000000000000000000000000..f55bc68be30b3246d53a2df6aa380d55a666d7f3 --- /dev/null +++ b/mendelian_traits_matched_9/AUROC_by_chrom/all/Sei.LogisticRegression.chrom.csv @@ -0,0 +1,20 @@ +chrom,n,Model,AUROC +1,210,Sei.LogisticRegression.chrom,0.5374149659863945 +2,230,Sei.LogisticRegression.chrom,0.7811384162990969 +3,310,Sei.LogisticRegression.chrom,0.7227425135853857 +5,20,Sei.LogisticRegression.chrom,0.75 +6,30,Sei.LogisticRegression.chrom,0.5555555555555556 +7,210,Sei.LogisticRegression.chrom,0.5051650289745528 +8,70,Sei.LogisticRegression.chrom,0.48072562358276644 +9,240,Sei.LogisticRegression.chrom,0.7918595679012346 +10,190,Sei.LogisticRegression.chrom,0.6491228070175439 +11,480,Sei.LogisticRegression.chrom,0.599633487654321 +12,30,Sei.LogisticRegression.chrom,0.7160493827160493 +13,210,Sei.LogisticRegression.chrom,0.7326782564877803 +14,40,Sei.LogisticRegression.chrom,0.5416666666666666 +16,80,Sei.LogisticRegression.chrom,0.3645833333333333 +17,60,Sei.LogisticRegression.chrom,0.6296296296296295 +19,400,Sei.LogisticRegression.chrom,0.614375 +20,50,Sei.LogisticRegression.chrom,0.7733333333333334 +22,20,Sei.LogisticRegression.chrom,0.8333333333333334 +X,500,Sei.LogisticRegression.chrom,0.8018666666666667 diff --git a/mendelian_traits_matched_9/AUROC_by_chrom/all/Sei.plus.seqclass_max_absdiff.csv b/mendelian_traits_matched_9/AUROC_by_chrom/all/Sei.plus.seqclass_max_absdiff.csv new file mode 100644 index 0000000000000000000000000000000000000000..bc3027bbda4e79d592f7690c167a5a3e8340e02e --- /dev/null +++ b/mendelian_traits_matched_9/AUROC_by_chrom/all/Sei.plus.seqclass_max_absdiff.csv @@ -0,0 +1,20 @@ +chrom,n,Model,AUROC +1,210,Sei.plus.seqclass_max_absdiff,0.5381708238851096 +2,230,Sei.plus.seqclass_max_absdiff,0.8596933417349296 +3,310,Sei.plus.seqclass_max_absdiff,0.860908775580992 +5,20,Sei.plus.seqclass_max_absdiff,0.5833333333333333 +6,30,Sei.plus.seqclass_max_absdiff,0.5555555555555556 +7,210,Sei.plus.seqclass_max_absdiff,0.7734945830183926 +8,70,Sei.plus.seqclass_max_absdiff,0.6462585034013605 +9,240,Sei.plus.seqclass_max_absdiff,0.8840663580246914 +10,190,Sei.plus.seqclass_max_absdiff,0.7076023391812865 +11,480,Sei.plus.seqclass_max_absdiff,0.6138117283950617 +12,30,Sei.plus.seqclass_max_absdiff,0.8148148148148148 +13,210,Sei.plus.seqclass_max_absdiff,0.7024439405391787 +14,40,Sei.plus.seqclass_max_absdiff,0.2986111111111111 +16,80,Sei.plus.seqclass_max_absdiff,0.607638888888889 +17,60,Sei.plus.seqclass_max_absdiff,0.6635802469135802 +19,400,Sei.plus.seqclass_max_absdiff,0.5368055555555555 +20,50,Sei.plus.seqclass_max_absdiff,0.7422222222222222 +22,20,Sei.plus.seqclass_max_absdiff,0.8055555555555556 +X,500,Sei.plus.seqclass_max_absdiff,0.7644888888888889 diff --git a/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/Borzoi.LogisticRegression.chrom.csv b/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/Borzoi.LogisticRegression.chrom.csv new file mode 100644 index 0000000000000000000000000000000000000000..452a46adda82ed9c7baf1919c79d8f4c85cb904c --- /dev/null +++ b/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/Borzoi.LogisticRegression.chrom.csv @@ -0,0 +1,2 @@ +model,metric,score,se +Borzoi.LogisticRegression.chrom,AUROC,0.8065971866162441,0.021103589149458254 diff --git a/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/CADD+Borzoi.LogisticRegression.chrom.csv b/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/CADD+Borzoi.LogisticRegression.chrom.csv new file mode 100644 index 0000000000000000000000000000000000000000..06e747e96de88d9408094fbfa62028d72d852d0f --- /dev/null +++ b/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/CADD+Borzoi.LogisticRegression.chrom.csv @@ -0,0 +1,2 @@ +model,metric,score,se +CADD+Borzoi.LogisticRegression.chrom,AUROC,0.8893582300725595,0.0192709349279206 diff --git a/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/CADD+GPN-MSA+Borzoi.LogisticRegression.chrom.csv b/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/CADD+GPN-MSA+Borzoi.LogisticRegression.chrom.csv new file mode 100644 index 0000000000000000000000000000000000000000..530e7b7e0f54413184816a57b33f817b4f9231bc --- /dev/null +++ b/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/CADD+GPN-MSA+Borzoi.LogisticRegression.chrom.csv @@ -0,0 +1,2 @@ +model,metric,score,se +CADD+GPN-MSA+Borzoi.LogisticRegression.chrom,AUROC,0.8934215272537339,0.016816618993044742 diff --git a/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/CADD+GPN-MSA.LogisticRegression.chrom.csv b/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/CADD+GPN-MSA.LogisticRegression.chrom.csv new file mode 100644 index 0000000000000000000000000000000000000000..34abb67f3562cd1cb107915cb5203763db952847 --- /dev/null +++ b/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/CADD+GPN-MSA.LogisticRegression.chrom.csv @@ -0,0 +1,2 @@ +model,metric,score,se +CADD+GPN-MSA.LogisticRegression.chrom,AUROC,0.9473345796526276,0.015185041415705083 diff --git a/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/CADD.LogisticRegression.chrom.csv b/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/CADD.LogisticRegression.chrom.csv new file mode 100644 index 0000000000000000000000000000000000000000..43088b9fd713820848df2b1eda42a35162cefbea --- /dev/null +++ b/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/CADD.LogisticRegression.chrom.csv @@ -0,0 +1,2 @@ +model,metric,score,se +CADD.LogisticRegression.chrom,AUROC,0.95856114498837,0.013203555700306433 diff --git a/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/CADD.plus.RawScore.csv b/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/CADD.plus.RawScore.csv new file mode 100644 index 0000000000000000000000000000000000000000..bbb1bde982dd2dbccb96a036b55dd993cb99a171 --- /dev/null +++ b/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/CADD.plus.RawScore.csv @@ -0,0 +1,2 @@ +model,metric,score,se +CADD.plus.RawScore,AUROC,0.8925850098264585,0.016053941096174962 diff --git a/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/Caduceus.LogisticRegression.chrom.csv b/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/Caduceus.LogisticRegression.chrom.csv new file mode 100644 index 0000000000000000000000000000000000000000..95f3abc399c61fc0465f4d429a2b1f93d3fbcee7 --- /dev/null +++ b/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/Caduceus.LogisticRegression.chrom.csv @@ -0,0 +1,2 @@ +model,metric,score,se +Caduceus.LogisticRegression.chrom,AUROC,0.5982808597501177,0.060088656273358895 diff --git a/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/Caduceus_Embeddings.minus.inner_product.csv b/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/Caduceus_Embeddings.minus.inner_product.csv new file mode 100644 index 0000000000000000000000000000000000000000..b9fdc65b02dd84696ab00c1cfce7b086154082d0 --- /dev/null +++ b/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/Caduceus_Embeddings.minus.inner_product.csv @@ -0,0 +1,2 @@ +model,metric,score,se +Caduceus_Embeddings.minus.inner_product,AUROC,0.5436272633468365,0.04965723922381773 diff --git a/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/Caduceus_Embeddings.plus.euclidean_distance.csv b/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/Caduceus_Embeddings.plus.euclidean_distance.csv new file mode 100644 index 0000000000000000000000000000000000000000..4c1754edafaff7bce98292a704473ec3f6bb94b3 --- /dev/null +++ b/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/Caduceus_Embeddings.plus.euclidean_distance.csv @@ -0,0 +1,2 @@ +model,metric,score,se +Caduceus_Embeddings.plus.euclidean_distance,AUROC,0.5319138103383835,0.02355239149811887 diff --git a/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/Caduceus_LLR.minus.score.csv b/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/Caduceus_LLR.minus.score.csv new file mode 100644 index 0000000000000000000000000000000000000000..ad9703f603b04e82b2e13988fc255f14e4944160 --- /dev/null +++ b/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/Caduceus_LLR.minus.score.csv @@ -0,0 +1,2 @@ +model,metric,score,se +Caduceus_LLR.minus.score,AUROC,0.5092203388284801,0.016428785056461493 diff --git a/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/Caduceus_absLLR.plus.score.csv b/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/Caduceus_absLLR.plus.score.csv new file mode 100644 index 0000000000000000000000000000000000000000..258375b04a1955d8dd87ed192fcd2de708781474 --- /dev/null +++ b/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/Caduceus_absLLR.plus.score.csv @@ -0,0 +1,2 @@ +model,metric,score,se +Caduceus_absLLR.plus.score,AUROC,0.39118666324247253,0.01856498333517363 diff --git a/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/Enformer.LogisticRegression.chrom.csv b/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/Enformer.LogisticRegression.chrom.csv new file mode 100644 index 0000000000000000000000000000000000000000..f42283a16689ff981516a56f528e8a135850a217 --- /dev/null +++ b/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/Enformer.LogisticRegression.chrom.csv @@ -0,0 +1,2 @@ +model,metric,score,se +Enformer.LogisticRegression.chrom,AUROC,0.7772699510514015,0.02181132606313094 diff --git a/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/GPN-MSA+Borzoi.LogisticRegression.chrom.csv b/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/GPN-MSA+Borzoi.LogisticRegression.chrom.csv new file mode 100644 index 0000000000000000000000000000000000000000..275be8088765b44a405198018154d4e7206054ce --- /dev/null +++ b/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/GPN-MSA+Borzoi.LogisticRegression.chrom.csv @@ -0,0 +1,2 @@ +model,metric,score,se +GPN-MSA+Borzoi.LogisticRegression.chrom,AUROC,0.9135511735610182,0.018793475275930206 diff --git a/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/GPN-MSA_Embeddings.minus.inner_product.csv b/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/GPN-MSA_Embeddings.minus.inner_product.csv new file mode 100644 index 0000000000000000000000000000000000000000..c33fea6b44a3ca06c181c28f7d0e60fef5f772fe --- /dev/null +++ b/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/GPN-MSA_Embeddings.minus.inner_product.csv @@ -0,0 +1,2 @@ +model,metric,score,se +GPN-MSA_Embeddings.minus.inner_product,AUROC,0.7746807519637406,0.026081706561333566 diff --git a/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/GPN-MSA_Embeddings.plus.cosine_distance.csv b/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/GPN-MSA_Embeddings.plus.cosine_distance.csv new file mode 100644 index 0000000000000000000000000000000000000000..167aefdc9d4fd1a553b5ae4a05a1592b78fe65c4 --- /dev/null +++ b/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/GPN-MSA_Embeddings.plus.cosine_distance.csv @@ -0,0 +1,2 @@ +model,metric,score,se +GPN-MSA_Embeddings.plus.cosine_distance,AUROC,0.6724780097618392,0.03089203380904042 diff --git a/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/GPN-MSA_LLR.minus.score.csv b/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/GPN-MSA_LLR.minus.score.csv new file mode 100644 index 0000000000000000000000000000000000000000..9817d6aab7421301dd2b8f3a2e1ebf68d0a45120 --- /dev/null +++ b/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/GPN-MSA_LLR.minus.score.csv @@ -0,0 +1,2 @@ +model,metric,score,se +GPN-MSA_LLR.minus.score,AUROC,0.9044146518085645,0.013772359384813597 diff --git a/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/GPN-MSA_absLLR.plus.score.csv b/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/GPN-MSA_absLLR.plus.score.csv new file mode 100644 index 0000000000000000000000000000000000000000..8d56f4cdd97621c07e0efa811b9e17cdca023be0 --- /dev/null +++ b/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/GPN-MSA_absLLR.plus.score.csv @@ -0,0 +1,2 @@ +model,metric,score,se +GPN-MSA_absLLR.plus.score,AUROC,0.8648724723199059,0.02086876595367961 diff --git a/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/GPN_final_Embeddings.minus.inner_product.csv b/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/GPN_final_Embeddings.minus.inner_product.csv new file mode 100644 index 0000000000000000000000000000000000000000..724e6841858dc2be82d7856fdd9371b9c21783f9 --- /dev/null +++ b/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/GPN_final_Embeddings.minus.inner_product.csv @@ -0,0 +1,2 @@ +model,metric,score,se +GPN_final_Embeddings.minus.inner_product,AUROC,0.4201400782623065,0.06301015448903134 diff --git a/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/GPN_final_Embeddings.plus.cosine_distance.csv b/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/GPN_final_Embeddings.plus.cosine_distance.csv new file mode 100644 index 0000000000000000000000000000000000000000..f8bb04ca23a3e12edde69acb51a9e9e263124706 --- /dev/null +++ b/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/GPN_final_Embeddings.plus.cosine_distance.csv @@ -0,0 +1,2 @@ +model,metric,score,se +GPN_final_Embeddings.plus.cosine_distance,AUROC,0.6042932092783678,0.03963539824207307 diff --git a/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/GPN_final_Embeddings.plus.euclidean_distance.csv b/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/GPN_final_Embeddings.plus.euclidean_distance.csv new file mode 100644 index 0000000000000000000000000000000000000000..739c67524176f0fb86e50b241e74163b44f27473 --- /dev/null +++ b/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/GPN_final_Embeddings.plus.euclidean_distance.csv @@ -0,0 +1,2 @@ +model,metric,score,se +GPN_final_Embeddings.plus.euclidean_distance,AUROC,0.6638747728771633,0.05510666002649911 diff --git a/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/GPN_final_LLR.minus.score.csv b/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/GPN_final_LLR.minus.score.csv new file mode 100644 index 0000000000000000000000000000000000000000..dfc8c3458e016ce8b4f22acc79b709af505bcc7a --- /dev/null +++ b/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/GPN_final_LLR.minus.score.csv @@ -0,0 +1,2 @@ +model,metric,score,se +GPN_final_LLR.minus.score,AUROC,0.717844668790734,0.039754392239035735 diff --git a/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/HyenaDNA.LogisticRegression.chrom.csv b/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/HyenaDNA.LogisticRegression.chrom.csv new file mode 100644 index 0000000000000000000000000000000000000000..9d46bf83f9b3b1a6e8ec2b5189486dfe9c06dfb3 --- /dev/null +++ b/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/HyenaDNA.LogisticRegression.chrom.csv @@ -0,0 +1,2 @@ +model,metric,score,se +HyenaDNA.LogisticRegression.chrom,AUROC,0.5714648633737943,0.03587995237414609 diff --git a/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/HyenaDNA_Embeddings.minus.inner_product.csv b/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/HyenaDNA_Embeddings.minus.inner_product.csv new file mode 100644 index 0000000000000000000000000000000000000000..90de561d27155a4c4680b82cbed35eaaddea3dc5 --- /dev/null +++ b/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/HyenaDNA_Embeddings.minus.inner_product.csv @@ -0,0 +1,2 @@ +model,metric,score,se +HyenaDNA_Embeddings.minus.inner_product,AUROC,0.5797448085712732,0.05283296296321137 diff --git a/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/HyenaDNA_Embeddings.plus.cosine_distance.csv b/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/HyenaDNA_Embeddings.plus.cosine_distance.csv new file mode 100644 index 0000000000000000000000000000000000000000..7e17d070bffe8eadf50158878418232fe6a467b7 --- /dev/null +++ b/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/HyenaDNA_Embeddings.plus.cosine_distance.csv @@ -0,0 +1,2 @@ +model,metric,score,se +HyenaDNA_Embeddings.plus.cosine_distance,AUROC,0.4748582902570764,0.040845163294961795 diff --git a/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/HyenaDNA_LLR.minus.score.csv b/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/HyenaDNA_LLR.minus.score.csv new file mode 100644 index 0000000000000000000000000000000000000000..0adacd2747678f8a9f8567d5cb9e8e3159084bdd --- /dev/null +++ b/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/HyenaDNA_LLR.minus.score.csv @@ -0,0 +1,2 @@ +model,metric,score,se +HyenaDNA_LLR.minus.score,AUROC,0.5125822712658394,0.016368537483777527 diff --git a/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/HyenaDNA_absLLR.plus.score.csv b/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/HyenaDNA_absLLR.plus.score.csv new file mode 100644 index 0000000000000000000000000000000000000000..c5267506552f43b4d9873ab9712b777c7ef3e59b --- /dev/null +++ b/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/HyenaDNA_absLLR.plus.score.csv @@ -0,0 +1,2 @@ +model,metric,score,se +HyenaDNA_absLLR.plus.score,AUROC,0.47675630954281223,0.01998331550652776 diff --git a/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/NucleotideTransformer.LogisticRegression.chrom.csv b/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/NucleotideTransformer.LogisticRegression.chrom.csv new file mode 100644 index 0000000000000000000000000000000000000000..dfe400cedbae174e263360717884e45292345354 --- /dev/null +++ b/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/NucleotideTransformer.LogisticRegression.chrom.csv @@ -0,0 +1,2 @@ +model,metric,score,se +NucleotideTransformer.LogisticRegression.chrom,AUROC,0.5870188206945565,0.062148561641176985 diff --git a/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/NucleotideTransformer_Embeddings.minus.inner_product.csv b/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/NucleotideTransformer_Embeddings.minus.inner_product.csv new file mode 100644 index 0000000000000000000000000000000000000000..8065126d680b01e3064fc9fdbdbb236462befc44 --- /dev/null +++ b/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/NucleotideTransformer_Embeddings.minus.inner_product.csv @@ -0,0 +1,2 @@ +model,metric,score,se +NucleotideTransformer_Embeddings.minus.inner_product,AUROC,0.5414103126841968,0.04985718358467873 diff --git a/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/NucleotideTransformer_Embeddings.plus.cosine_distance.csv b/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/NucleotideTransformer_Embeddings.plus.cosine_distance.csv new file mode 100644 index 0000000000000000000000000000000000000000..db0850212b5b6bb02761dd24717fb4885469a2c9 --- /dev/null +++ b/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/NucleotideTransformer_Embeddings.plus.cosine_distance.csv @@ -0,0 +1,2 @@ +model,metric,score,se +NucleotideTransformer_Embeddings.plus.cosine_distance,AUROC,0.6203855114792285,0.03941952306776797 diff --git a/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/NucleotideTransformer_Embeddings.plus.euclidean_distance.csv b/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/NucleotideTransformer_Embeddings.plus.euclidean_distance.csv new file mode 100644 index 0000000000000000000000000000000000000000..6caa744454d08e3e3bf19178d36fa1fc5f9a2ff3 --- /dev/null +++ b/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/NucleotideTransformer_Embeddings.plus.euclidean_distance.csv @@ -0,0 +1,2 @@ +model,metric,score,se +NucleotideTransformer_Embeddings.plus.euclidean_distance,AUROC,0.6164676105185003,0.04018674162501479 diff --git a/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/NucleotideTransformer_LLR.minus.score.csv b/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/NucleotideTransformer_LLR.minus.score.csv new file mode 100644 index 0000000000000000000000000000000000000000..974d1f403e1e170f156259fb74cae618a6e37a2f --- /dev/null +++ b/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/NucleotideTransformer_LLR.minus.score.csv @@ -0,0 +1,2 @@ +model,metric,score,se +NucleotideTransformer_LLR.minus.score,AUROC,0.5344484579348032,0.02058686492702606 diff --git a/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/NucleotideTransformer_absLLR.plus.score.csv b/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/NucleotideTransformer_absLLR.plus.score.csv new file mode 100644 index 0000000000000000000000000000000000000000..37255b991c819401b3f59d6d73a73327e9a475ae --- /dev/null +++ b/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/NucleotideTransformer_absLLR.plus.score.csv @@ -0,0 +1,2 @@ +model,metric,score,se +NucleotideTransformer_absLLR.plus.score,AUROC,0.4278528166333159,0.022595975811350536 diff --git a/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/Sei.LogisticRegression.chrom.csv b/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/Sei.LogisticRegression.chrom.csv new file mode 100644 index 0000000000000000000000000000000000000000..83c5ecea7d90eb6929e8531cc32279304942d701 --- /dev/null +++ b/mendelian_traits_matched_9/AUROC_by_chrom_weighted_average/all/Sei.LogisticRegression.chrom.csv @@ -0,0 +1,2 @@ +model,metric,score,se +Sei.LogisticRegression.chrom,AUROC,0.6672031571138811,0.03094379752377893