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0000000000000000000000000000000000000000..fbb5d5534ccb82ca0c7fe71fd026a46d43d5f9d0 --- /dev/null +++ b/ENCSR036VRV/cherimoya.fold_3.fit.json @@ -0,0 +1 @@ +{"n_filters": 128, "name": "cherimoya.fold_3", "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", "chr7", "chr8", "chr9", "chr11", "chr12", "chr13", "chr15", "chr16", "chr17", "chr19", "chrX", "chrY"], "validation_chroms": ["chr6", "chr21"], "sequences": "hg38.fa", "loci": ["train_peaks.fold_3.bed", "valid_peaks.fold_3.bed"], "exclusion_lists": ["https://www.encodeproject.org/files/ENCFF940NTE/@@download/ENCFF940NTE.bed.gz"], "negatives": ["train_nonpeaks.fold_3.bed", "valid_nonpeaks.fold_3.bed"], "signals": ["ENCFF584UDH.bigWig"], "controls": null, "random_state": null, "performance_filename": null, "num_workers": 1, "skip": false} \ No newline at end of file diff --git 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0000000000000000000000000000000000000000..9a94f5f8456447ec38bab14da34f743f92788acf --- /dev/null +++ b/ENCSR173NHL/cherimoya.fold_3.fit.json @@ -0,0 +1 @@ +{"n_filters": 128, "name": "cherimoya.fold_3", "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", "chr7", "chr8", "chr9", "chr11", "chr12", "chr13", "chr15", "chr16", "chr17", "chr19", "chrX", "chrY"], "validation_chroms": ["chr6", "chr21"], "sequences": "hg38.fa", "loci": ["train_peaks.fold_3.bed", "valid_peaks.fold_3.bed"], "exclusion_lists": ["https://www.encodeproject.org/files/ENCFF940NTE/@@download/ENCFF940NTE.bed.gz"], "negatives": ["train_nonpeaks.fold_3.bed", "valid_nonpeaks.fold_3.bed"], "signals": ["ENCFF754OMM.bigWig"], "controls": null, "random_state": null, "performance_filename": null, "num_workers": 1, "skip": false} \ No newline at end of file diff --git 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0.2609473764896393 778.6157836914062 0.37728646397590637 0.8557057 0.3244577646255493 True +17 49572 30.626046657562256 0.5814037322998047 734.1630859375 0.22107930481433868 777.1160888671875 0.37859639525413513 0.85732746 0.31589940190315247 True +18 52326 30.61471128463745 0.5786001682281494 560.9268188476562 0.2183472216129303 777.0802612304688 0.3781745731830597 0.8560209 0.31398147344589233 False +19 55080 30.64616322517395 0.5767583847045898 572.733642578125 0.204905167222023 776.4038696289062 0.37953490018844604 0.8560921 0.31680646538734436 False diff --git a/ENCSR173NHL/cherimoya.fold_3.performance.tsv b/ENCSR173NHL/cherimoya.fold_3.performance.tsv new file mode 100644 index 0000000000000000000000000000000000000000..965ba382f60a2291e971c8da3d741b2d96d8cdc0 --- /dev/null +++ b/ENCSR173NHL/cherimoya.fold_3.performance.tsv @@ -0,0 +1,2 @@ +profile_mnll profile_jsd profile_pearson profile_spearman count_pearson count_spearman count_mse +777.1160888671875 0.3918410837650299 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0.36562034487724304 0.8732854 0.2084282487630844 True +11 33504 30.060058116912842 0.6088743209838867 460.68572998046875 0.3812624216079712 518.5070190429688 0.36677810549736023 0.87989235 0.20417526364326477 True +12 36296 30.098121881484985 0.6099700927734375 481.71319580078125 0.21790532767772675 517.4303588867188 0.3679155707359314 0.88209385 0.19001074135303497 True +13 39088 30.16367197036743 0.6037590503692627 474.1331787109375 0.24616117775440216 516.902099609375 0.3680912256240845 0.88839316 0.17493723332881927 True +14 41880 30.238020181655884 0.6048650741577148 447.09454345703125 0.26407331228256226 515.3304443359375 0.3702721893787384 0.89294076 0.16299347579479218 True +15 44672 30.123737812042236 0.6116552352905273 476.68621826171875 0.18333464860916138 514.31982421875 0.3721047341823578 0.89599013 0.15336143970489502 True +16 47464 30.07294988632202 0.599431037902832 463.909912109375 0.2100292444229126 514.3268432617188 0.37173664569854736 0.9003417 0.14887475967407227 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818.1390380859375 0.4049019515514374 0.86491674 0.4650014638900757 True +4 13740 30.58741569519043 0.5286867618560791 807.6255493164062 0.2205316424369812 813.1558837890625 0.4090034067630768 0.874289 0.42733410000801086 True +5 16488 30.63009023666382 0.5198535919189453 720.580322265625 0.32780927419662476 809.8690185546875 0.4109709560871124 0.8756958 0.39932480454444885 True +6 19236 30.69580078125 4.850714921951294 723.23291015625 0.2833552956581116 809.1323852539062 0.4108162224292755 0.88170844 0.3418865501880646 True +7 21984 30.690219163894653 0.5357654094696045 664.2295532226562 0.26031145453453064 804.3889770507812 0.4138592779636383 0.88244456 0.33578550815582275 True +8 24732 30.582401514053345 0.5328984260559082 721.6124267578125 0.32242387533187866 800.9592895507812 0.4163874387741089 0.8881102 0.3193463683128357 True +9 27480 30.67781162261963 0.5279877185821533 783.4502563476562 0.31923240423202515 800.2470703125 0.41710031032562256 0.8919768 0.3015306890010834 True +10 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No newline at end of file diff --git a/ENCSR622HTS/cherimoya.fold_1.log b/ENCSR622HTS/cherimoya.fold_1.log new file mode 100644 index 0000000000000000000000000000000000000000..f5d8f1c02894860c9156f87e6cc997e7011363fc --- /dev/null +++ b/ENCSR622HTS/cherimoya.fold_1.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? +0 2692 34.54595732688904 4.133031129837036 745.0944213867188 0.8170254230499268 1250.93408203125 0.2848525643348694 0.66473466 8.537516593933105 True +1 5384 29.69943356513977 0.7748227119445801 853.3065185546875 0.6759128570556641 1047.04541015625 0.390750914812088 0.76107574 3.037870168685913 True +2 8076 29.723521947860718 0.7420203685760498 662.9644775390625 0.7441744804382324 1019.6132202148438 0.4024905860424042 0.7812385 1.489058017730713 True +3 10768 29.69287347793579 0.7372379302978516 599.6063842773438 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2.6412250995635986 194.46200561523438 1.1683318614959717 261.7720947265625 0.3068534731864929 0.48473564 2.35392427444458 True +2 8631 32.04615330696106 1.400163173675537 206.8520965576172 1.1554286479949951 258.2755126953125 0.3158864974975586 0.502293 1.8657901287078857 True +3 11508 31.9853777885437 0.5872526168823242 235.6236572265625 0.7392123937606812 255.6158447265625 0.3215419352054596 0.513934 1.942279577255249 True +4 14385 31.970213174819946 0.5865306854248047 180.20706176757812 1.475497841835022 252.79795837402344 0.33301979303359985 0.5240435 1.6440154314041138 True +5 17262 32.008827447891235 0.582735538482666 189.8951416015625 0.9797122478485107 251.95001220703125 0.33633938431739807 0.53239965 1.555468201637268 True +6 20139 31.952680826187134 1.8345720767974854 189.05526733398438 1.2976880073547363 251.05116271972656 0.3387198746204376 0.5372909 1.4582335948944092 True +7 23016 31.99117875099182 0.5898900032043457 206.58560180664062 0.9125820994377136 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0.8523606061935425 True +14 43155 32.096503257751465 0.595954418182373 171.84381103515625 1.100638747215271 242.39419555664062 0.36637526750564575 0.60874337 0.7972240447998047 True +15 46032 31.992568731307983 0.5836386680603027 156.2640380859375 0.788567841053009 242.04640197753906 0.3655376136302948 0.6197951 0.7320668697357178 True +16 48909 31.98519730567932 0.5880558490753174 179.77029418945312 0.6829673051834106 241.18423461914062 0.3695140779018402 0.6292691 0.6836032271385193 True +17 51786 31.98624587059021 0.5956284999847412 194.33407592773438 0.7824258804321289 241.55703735351562 0.3669075667858124 0.6379481 0.6529813408851624 True +18 54663 32.042561531066895 0.5881030559539795 179.0367431640625 0.7296366691589355 241.40736389160156 0.36816173791885376 0.64041156 0.6407656073570251 True +19 57540 32.05249786376953 0.5845978260040283 210.34385681152344 0.8239925503730774 241.22039794921875 0.36909812688827515 0.63914615 0.6457381248474121 False diff --git 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