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ENCSR000EQJ/cherimoya.fold_0.evaluate.json

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+{
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+    "performance_filename": "cherimoya.fold_0.performance.tsv",
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+    "training_chroms": [
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+        "chr19",
+        "chr21",
+        "chr22",
+        "chrX",
+        "chrY"
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+    "validation_chroms": [
+        "chr8",
+        "chr20"
+    ],
+    "verbose": true
+}

ENCSR000EQJ/cherimoya.fold_0.fit.json

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+{"n_filters": 128, "name": "cherimoya.fold_0", "batch_size": 64, "reverse_complement": true, "reverse_complement_average": false, "early_stopping": 20, "dtype": "bfloat16", "device": "cuda", "verbose": true, "training_chroms": ["chr2", "chr4", "chr5", "chr7", "chr9", "chr10", "chr11", "chr12", "chr13", "chr14", "chr15", "chr16", "chr17", "chr18", "chr19", "chr21", "chr22", "chrX", "chrY"], "validation_chroms": ["chr8", "chr20"], "sequences": "hg38.fa", "loci": ["train_peaks.fold_0.bed", "valid_peaks.fold_0.bed"], "exclusion_lists": ["https://www.encodeproject.org/files/ENCFF940NTE/@@download/ENCFF940NTE.bed.gz"], "negatives": ["train_nonpeaks.fold_0.bed", "valid_nonpeaks.fold_0.bed"], "signals": ["ENCFF084VMN.bigWig"], "controls": null, "random_state": null, "performance_filename": null, "num_workers": 1, "skip": false}

ENCSR000EQJ/cherimoya.fold_0.log

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+Epoch	Iteration	Training Time	Validation Time	Training MNLL	Training Count MSE	Validation MNLL	Validation Profile Pearson	Validation Count Pearson	Validation Count MSE	Saved?
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ENCSR000EQJ/cherimoya.fold_0.performance.tsv

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+profile_mnll	profile_jsd	profile_pearson	profile_spearman	count_pearson	count_spearman	count_mse
+1210.252685546875	0.30283910036087036	0.5181246995925903	0.24670535326004028	0.7449517250061035	0.6679576635360718	0.8201032280921936

ENCSR000EQJ/cherimoya.fold_1.evaluate.json

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+{
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+    "batch_size": 64,
+    "chroms": [
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+    "name": "cherimoya.fold_1",
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+    "performance_filename": "cherimoya.fold_1.performance.tsv",
+    "random_state": null,
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+    "reverse_complement": false,
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+    "sequences": "hg38.fa",
+    "signals": [
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+    "summits": false,
+    "training_chroms": [
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+        "chr3",
+        "chr4",
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+        "chr18",
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+        "chr20",
+        "chr21",
+        "chr22",
+        "chrX",
+        "chrY"
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+    "validation_chroms": [
+        "chr12",
+        "chr17"
+    ],
+    "verbose": true
+}

ENCSR000EQJ/cherimoya.fold_1.fit.json

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+{"n_filters": 128, "name": "cherimoya.fold_1", "batch_size": 64, "reverse_complement": true, "reverse_complement_average": false, "early_stopping": 20, "dtype": "bfloat16", "device": "cuda", "verbose": true, "training_chroms": ["chr1", "chr3", "chr4", "chr5", "chr6", "chr7", "chr10", "chr11", "chr13", "chr14", "chr15", "chr18", "chr19", "chr20", "chr21", "chr22", "chrX", "chrY"], "validation_chroms": ["chr12", "chr17"], "sequences": "hg38.fa", "loci": ["train_peaks.fold_1.bed", "valid_peaks.fold_1.bed"], "exclusion_lists": ["https://www.encodeproject.org/files/ENCFF940NTE/@@download/ENCFF940NTE.bed.gz"], "negatives": ["train_nonpeaks.fold_1.bed", "valid_nonpeaks.fold_1.bed"], "signals": ["ENCFF084VMN.bigWig"], "controls": null, "random_state": null, "performance_filename": null, "num_workers": 1, "skip": false}

ENCSR000EQJ/cherimoya.fold_1.log

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ENCSR000EQJ/cherimoya.fold_1.performance.tsv

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+profile_mnll	profile_jsd	profile_pearson	profile_spearman	count_pearson	count_spearman	count_mse
+1446.460693359375	0.28643500804901123	0.5318558216094971	0.2783310115337372	0.7760709524154663	0.719372034072876	0.8599284291267395

ENCSR000EQJ/cherimoya.fold_2.fit.json

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+{"n_filters": 128, "name": "cherimoya.fold_2", "batch_size": 64, "reverse_complement": true, "reverse_complement_average": false, "early_stopping": 20, "dtype": "bfloat16", "device": "cuda", "verbose": true, "training_chroms": ["chr1", "chr2", "chr3", "chr5", "chr6", "chr8", "chr9", "chr10", "chr13", "chr14", "chr16", "chr17", "chr18", "chr19", "chr20", "chr21", "chrX"], "validation_chroms": ["chr22", "chr7"], "sequences": "hg38.fa", "loci": ["train_peaks.fold_2.bed", "valid_peaks.fold_2.bed"], "exclusion_lists": ["https://www.encodeproject.org/files/ENCFF940NTE/@@download/ENCFF940NTE.bed.gz"], "negatives": ["train_nonpeaks.fold_2.bed", "valid_nonpeaks.fold_2.bed"], "signals": ["ENCFF084VMN.bigWig"], "controls": null, "random_state": null, "performance_filename": null, "num_workers": 1, "skip": false}

ENCSR000EQJ/cherimoya.fold_2.log

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+Epoch	Iteration	Training Time	Validation Time	Training MNLL	Training Count MSE	Validation MNLL	Validation Profile Pearson	Validation Count Pearson	Validation Count MSE	Saved?
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ENCSR000EQJ/cherimoya.fold_2.performance.tsv

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ENCSR000EQJ/cherimoya.fold_3.fit.json

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ENCSR000EQJ/cherimoya.fold_3.log

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ENCSR000EQJ/cherimoya.fold_3.performance.tsv

@@ -0,0 +1,2 @@
+profile_mnll	profile_jsd	profile_pearson	profile_spearman	count_pearson	count_spearman	count_mse
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ENCSR000EQJ/cherimoya.fold_4.evaluate.json

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+}

ENCSR000EQJ/cherimoya.fold_4.log

@@ -0,0 +1,21 @@
+Epoch	Iteration	Training Time	Validation Time	Training MNLL	Training Count MSE	Validation MNLL	Validation Profile Pearson	Validation Count Pearson	Validation Count MSE	Saved?
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ENCSR021YFW/cherimoya.fold_0.evaluate.json

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+{
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+        "chr20"
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+    "verbose": true
+}

ENCSR021YFW/cherimoya.fold_0.log

@@ -0,0 +1,21 @@
+Epoch	Iteration	Training Time	Validation Time	Training MNLL	Training Count MSE	Validation MNLL	Validation Profile Pearson	Validation Count Pearson	Validation Count MSE	Saved?
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ENCSR021YFW/cherimoya.fold_0.performance.tsv

@@ -0,0 +1,2 @@
+profile_mnll	profile_jsd	profile_pearson	profile_spearman	count_pearson	count_spearman	count_mse
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ENCSR021YFW/cherimoya.fold_1.evaluate.json

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+{
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+    "summits": false,
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+        "chrY"
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+    "validation_chroms": [
+        "chr12",
+        "chr17"
+    ],
+    "verbose": true
+}

ENCSR021YFW/cherimoya.fold_1.fit.json

@@ -0,0 +1 @@
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ENCSR021YFW/cherimoya.fold_1.log

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ENCSR021YFW/cherimoya.fold_2.fit.json

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ENCSR021YFW/cherimoya.fold_2.log

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ENCSR021YFW/cherimoya.fold_2.performance.tsv

@@ -0,0 +1,2 @@
+profile_mnll	profile_jsd	profile_pearson	profile_spearman	count_pearson	count_spearman	count_mse
+1080.4061279296875	0.3297733962535858	0.45477941632270813	0.23443983495235443	0.7864354252815247	0.7171720266342163	0.7276574373245239

ENCSR021YFW/cherimoya.fold_3.evaluate.json

@@ -0,0 +1,75 @@
+{
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+    "performance_filename": "cherimoya.fold_3.performance.tsv",
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+    "verbose": true
+}

ENCSR021YFW/cherimoya.fold_3.fit.json

@@ -0,0 +1 @@
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ENCSR021YFW/cherimoya.fold_4.evaluate.json

@@ -0,0 +1,75 @@
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+}

ENCSR021YFW/cherimoya.fold_4.fit.json

@@ -0,0 +1 @@
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ENCSR021YFW/cherimoya.fold_4.log

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ENCSR134BSY/cherimoya.fold_0.performance.tsv

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ENCSR134BSY/cherimoya.fold_1.performance.tsv

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ENCSR134BSY/cherimoya.fold_2.performance.tsv

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ENCSR134BSY/cherimoya.fold_3.log

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ENCSR134BSY/cherimoya.fold_4.fit.json

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ENCSR134BSY/cherimoya.fold_4.log

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ENCSR239MQN/cherimoya.fold_0.evaluate.json

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+}

ENCSR239MQN/cherimoya.fold_1.evaluate.json

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+}

ENCSR239MQN/cherimoya.fold_2.fit.json

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ENCSR362ZFC/cherimoya.fold_0.evaluate.json

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+}

ENCSR362ZFC/cherimoya.fold_1.evaluate.json

@@ -0,0 +1,77 @@
+{
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+        "chr18",
+        "chr19",
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+        "chr21",
+        "chr22",
+        "chrX",
+        "chrY"
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+    "validation_chroms": [
+        "chr12",
+        "chr17"
+    ],
+    "verbose": true
+}

ENCSR362ZFC/cherimoya.fold_2.evaluate.json

@@ -0,0 +1,76 @@
+{
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+    "validation_chroms": [
+        "chr22",
+        "chr7"
+    ],
+    "verbose": true
+}

ENCSR362ZFC/cherimoya.fold_3.log

@@ -0,0 +1,21 @@
+Epoch	Iteration	Training Time	Validation Time	Training MNLL	Training Count MSE	Validation MNLL	Validation Profile Pearson	Validation Count Pearson	Validation Count MSE	Saved?
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ENCSR362ZFC/cherimoya.fold_4.evaluate.json

@@ -0,0 +1,75 @@
+{
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+        "chr22",
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+    "validation_chroms": [
+        "chr10",
+        "chr18"
+    ],
+    "verbose": true
+}

ENCSR362ZFC/cherimoya.fold_4.fit.json

@@ -0,0 +1 @@
+{"n_filters": 128, "name": "cherimoya.fold_4", "batch_size": 64, "reverse_complement": true, "reverse_complement_average": false, "early_stopping": 20, "dtype": "bfloat16", "device": "cuda", "verbose": true, "training_chroms": ["chr1", "chr2", "chr3", "chr4", "chr5", "chr6", "chr8", "chr9", "chr11", "chr12", "chr14", "chr15", "chr16", "chr20", "chr22", "chrY"], "validation_chroms": ["chr10", "chr18"], "sequences": "hg38.fa", "loci": ["train_peaks.fold_4.bed", "valid_peaks.fold_4.bed"], "exclusion_lists": ["https://www.encodeproject.org/files/ENCFF940NTE/@@download/ENCFF940NTE.bed.gz"], "negatives": ["train_nonpeaks.fold_4.bed", "valid_nonpeaks.fold_4.bed"], "signals": ["ENCFF022CQQ.bigWig"], "controls": null, "random_state": null, "performance_filename": null, "num_workers": 1, "skip": false}

ENCSR362ZFC/cherimoya.fold_4.log

@@ -0,0 +1,21 @@
+Epoch	Iteration	Training Time	Validation Time	Training MNLL	Training Count MSE	Validation MNLL	Validation Profile Pearson	Validation Count Pearson	Validation Count MSE	Saved?
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ENCSR362ZFC/cherimoya.fold_4.performance.tsv

@@ -0,0 +1,2 @@
+profile_mnll	profile_jsd	profile_pearson	profile_spearman	count_pearson	count_spearman	count_mse
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ENCSR498RLX/cherimoya.fold_0.log

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ENCSR498RLX/cherimoya.fold_0.performance.tsv

@@ -0,0 +1,2 @@
+profile_mnll	profile_jsd	profile_pearson	profile_spearman	count_pearson	count_spearman	count_mse
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ENCSR498RLX/cherimoya.fold_3.log

@@ -0,0 +1,21 @@
+Epoch	Iteration	Training Time	Validation Time	Training MNLL	Training Count MSE	Validation MNLL	Validation Profile Pearson	Validation Count Pearson	Validation Count MSE	Saved?
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+8	24723	30.841625690460205	0.5799980163574219	379.4683837890625	0.30530235171318054	487.8102722167969	0.3859705626964569	0.8064065	0.42214444279670715	True
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+11	32964	30.72024130821228	0.5739731788635254	431.1942443847656	0.35355234146118164	484.9587097167969	0.38882362842559814	0.8210114	0.36525246500968933	True
+12	35711	30.644336938858032	0.5713953971862793	456.35406494140625	0.3952783942222595	484.28106689453125	0.38958266377449036	0.82607114	0.3457726836204529	True
+13	38458	30.630635261535645	0.5663204193115234	472.3570251464844	0.40499788522720337	483.48052978515625	0.3909015953540802	0.8280343	0.3273104429244995	True
+14	41205	30.635011196136475	0.5746262073516846	443.1387939453125	0.28098851442337036	481.63507080078125	0.3934515416622162	0.83424115	0.3111259639263153	True
+15	43952	30.742568492889404	0.5711348056793213	412.277099609375	0.2293614000082016	480.4667663574219	0.3952913284301758	0.8383761	0.2981579601764679	True
+16	46699	30.630786895751953	2.934082508087158	476.1733093261719	0.24056412279605865	479.94793701171875	0.3955579102039337	0.8408019	0.28881511092185974	True
+17	49446	30.15435767173767	0.5959506034851074	457.67852783203125	0.21038004755973816	480.5541687011719	0.3956458568572998	0.84105545	0.2842194139957428	True
+18	52193	30.028716564178467	0.5595660209655762	402.43475341796875	0.17407995462417603	480.3343811035156	0.39567816257476807	0.84134203	0.28514766693115234	True
+19	54940	29.890862703323364	0.5549178123474121	401.0428466796875	0.18291130661964417	480.9766540527344	0.3941771686077118	0.83957535	0.28640756011009216	False