File table
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FilesPath
Alignment
Replicate 1
Pseudoreplicate 1
TAG-ALIGNgs://neuro-variants/data/processed/encode_2024/croo/encode_2024.LV.fibroblast.I/align/rep1/pseudorep1/encode_2024.LV.fibroblast.I.pr1.tagAlign.gz
Pseudoreplicate 2
TAG-ALIGNgs://neuro-variants/data/processed/encode_2024/croo/encode_2024.LV.fibroblast.I/align/rep1/pseudorep2/encode_2024.LV.fibroblast.I.pr2.tagAlign.gz
Peak
IDR reproducibility
Conservative peakgs://neuro-variants/data/processed/encode_2024/croo/encode_2024.LV.fibroblast.I/peak/idr_reproducibility/idr.conservative_peak.narrowPeak.gz
Conservative peak (BigBed)gs://neuro-variants/data/processed/encode_2024/croo/encode_2024.LV.fibroblast.I/peak/idr_reproducibility/idr.conservative_peak.narrowPeak.bb
Conservative peak (hammock)gs://neuro-variants/data/processed/encode_2024/croo/encode_2024.LV.fibroblast.I/peak/idr_reproducibility/idr.conservative_peak.narrowPeak.hammock.gz
Conservative peak (starch)gs://neuro-variants/data/processed/encode_2024/croo/encode_2024.LV.fibroblast.I/peak/idr_reproducibility/idr.conservative_peak.narrowPeak.starch
Optimal peakgs://neuro-variants/data/processed/encode_2024/croo/encode_2024.LV.fibroblast.I/peak/idr_reproducibility/idr.optimal_peak.narrowPeak.gz
Optimal peak (BigBed)gs://neuro-variants/data/processed/encode_2024/croo/encode_2024.LV.fibroblast.I/peak/idr_reproducibility/idr.optimal_peak.narrowPeak.bb
Optimal peak (hammock)gs://neuro-variants/data/processed/encode_2024/croo/encode_2024.LV.fibroblast.I/peak/idr_reproducibility/idr.optimal_peak.narrowPeak.hammock.gz
Optimal peak (starch)gs://neuro-variants/data/processed/encode_2024/croo/encode_2024.LV.fibroblast.I/peak/idr_reproducibility/idr.optimal_peak.narrowPeak.starch
Overlap reproducibility
Conservative peakgs://neuro-variants/data/processed/encode_2024/croo/encode_2024.LV.fibroblast.I/peak/overlap_reproducibility/overlap.conservative_peak.narrowPeak.gz
Conservative peak (BigBed)gs://neuro-variants/data/processed/encode_2024/croo/encode_2024.LV.fibroblast.I/peak/overlap_reproducibility/overlap.conservative_peak.narrowPeak.bb
Conservative peak (hammock)gs://neuro-variants/data/processed/encode_2024/croo/encode_2024.LV.fibroblast.I/peak/overlap_reproducibility/overlap.conservative_peak.narrowPeak.hammock.gz
Conservative peak (starch)gs://neuro-variants/data/processed/encode_2024/croo/encode_2024.LV.fibroblast.I/peak/overlap_reproducibility/overlap.conservative_peak.narrowPeak.starch
Optimal peakgs://neuro-variants/data/processed/encode_2024/croo/encode_2024.LV.fibroblast.I/peak/overlap_reproducibility/overlap.optimal_peak.narrowPeak.gz
Optimal peak (BigBed)gs://neuro-variants/data/processed/encode_2024/croo/encode_2024.LV.fibroblast.I/peak/overlap_reproducibility/overlap.optimal_peak.narrowPeak.bb
Optimal peak (hammock)gs://neuro-variants/data/processed/encode_2024/croo/encode_2024.LV.fibroblast.I/peak/overlap_reproducibility/overlap.optimal_peak.narrowPeak.hammock.gz
Optimal peak (starch)gs://neuro-variants/data/processed/encode_2024/croo/encode_2024.LV.fibroblast.I/peak/overlap_reproducibility/overlap.optimal_peak.narrowPeak.starch
Replicate 1
Pseudorep 1 vs. pseudorep 2
Blacklist-filtered IDR peakgs://neuro-variants/data/processed/encode_2024/croo/encode_2024.LV.fibroblast.I/peak/rep1-pseudorep1_vs_2/rep1-pr1_vs_rep1-pr2.idr0.05.bfilt.narrowPeak.gz
Blacklist-filtered IDR peak (BigBed)gs://neuro-variants/data/processed/encode_2024/croo/encode_2024.LV.fibroblast.I/peak/rep1-pseudorep1_vs_2/rep1-pr1_vs_rep1-pr2.idr0.05.bfilt.narrowPeak.bb
Blacklist-filtered IDR peak (hammock)gs://neuro-variants/data/processed/encode_2024/croo/encode_2024.LV.fibroblast.I/peak/rep1-pseudorep1_vs_2/rep1-pr1_vs_rep1-pr2.idr0.05.bfilt.narrowPeak.hammock.gz
Blacklist-filtered IDR peak (starch)gs://neuro-variants/data/processed/encode_2024/croo/encode_2024.LV.fibroblast.I/peak/rep1-pseudorep1_vs_2/rep1-pr1_vs_rep1-pr2.idr0.05.bfilt.narrowPeak.starch
Blacklist-filtered overlap peakgs://neuro-variants/data/processed/encode_2024/croo/encode_2024.LV.fibroblast.I/peak/rep1-pseudorep1_vs_2/rep1-pr1_vs_rep1-pr2.overlap.bfilt.narrowPeak.gz
Blacklist-filtered overlap peak (BigBed)gs://neuro-variants/data/processed/encode_2024/croo/encode_2024.LV.fibroblast.I/peak/rep1-pseudorep1_vs_2/rep1-pr1_vs_rep1-pr2.overlap.bfilt.narrowPeak.bb
Blacklist-filtered overlap peak (hammock)gs://neuro-variants/data/processed/encode_2024/croo/encode_2024.LV.fibroblast.I/peak/rep1-pseudorep1_vs_2/rep1-pr1_vs_rep1-pr2.overlap.bfilt.narrowPeak.hammock.gz
Blacklist-filtered overlap peak (starch)gs://neuro-variants/data/processed/encode_2024/croo/encode_2024.LV.fibroblast.I/peak/rep1-pseudorep1_vs_2/rep1-pr1_vs_rep1-pr2.overlap.bfilt.narrowPeak.starch
Unthresholded raw IDR peakgs://neuro-variants/data/processed/encode_2024/croo/encode_2024.LV.fibroblast.I/peak/rep1-pseudorep1_vs_2/rep1-pr1_vs_rep1-pr2.idr0.05.unthresholded-peaks.txt.gz
Pseudoreplicate 1
Blacklist-filtered narrowpeakgs://neuro-variants/data/processed/encode_2024/croo/encode_2024.LV.fibroblast.I/peak/rep1/pseudorep1/encode_2024.LV.fibroblast.I.pr1.pval0.01.300K.bfilt.narrowPeak.gz
Blacklist-filtered narrowpeak (BigBed)gs://neuro-variants/data/processed/encode_2024/croo/encode_2024.LV.fibroblast.I/peak/rep1/pseudorep1/encode_2024.LV.fibroblast.I.pr1.pval0.01.300K.bfilt.narrowPeak.bb
Blacklist-filtered narrowpeak (hammock)gs://neuro-variants/data/processed/encode_2024/croo/encode_2024.LV.fibroblast.I/peak/rep1/pseudorep1/encode_2024.LV.fibroblast.I.pr1.pval0.01.300K.bfilt.narrowPeak.hammock.gz
Blacklist-filtered narrowpeak (starch)gs://neuro-variants/data/processed/encode_2024/croo/encode_2024.LV.fibroblast.I/peak/rep1/pseudorep1/encode_2024.LV.fibroblast.I.pr1.pval0.01.300K.bfilt.narrowPeak.starch
Raw narrowpeakgs://neuro-variants/data/processed/encode_2024/croo/encode_2024.LV.fibroblast.I/peak/rep1/pseudorep1/encode_2024.LV.fibroblast.I.pr1.pval0.01.300K.narrowPeak.gz
Pseudoreplicate 2
Blacklist-filtered narrowpeakgs://neuro-variants/data/processed/encode_2024/croo/encode_2024.LV.fibroblast.I/peak/rep1/pseudorep2/encode_2024.LV.fibroblast.I.pr2.pval0.01.300K.bfilt.narrowPeak.gz
Blacklist-filtered narrowpeak (BigBed)gs://neuro-variants/data/processed/encode_2024/croo/encode_2024.LV.fibroblast.I/peak/rep1/pseudorep2/encode_2024.LV.fibroblast.I.pr2.pval0.01.300K.bfilt.narrowPeak.bb
Blacklist-filtered narrowpeak (hammock)gs://neuro-variants/data/processed/encode_2024/croo/encode_2024.LV.fibroblast.I/peak/rep1/pseudorep2/encode_2024.LV.fibroblast.I.pr2.pval0.01.300K.bfilt.narrowPeak.hammock.gz
Blacklist-filtered narrowpeak (starch)gs://neuro-variants/data/processed/encode_2024/croo/encode_2024.LV.fibroblast.I/peak/rep1/pseudorep2/encode_2024.LV.fibroblast.I.pr2.pval0.01.300K.bfilt.narrowPeak.starch
Raw narrowpeakgs://neuro-variants/data/processed/encode_2024/croo/encode_2024.LV.fibroblast.I/peak/rep1/pseudorep2/encode_2024.LV.fibroblast.I.pr2.pval0.01.300K.narrowPeak.gz
Blacklist-filtered narrowpeakgs://neuro-variants/data/processed/encode_2024/croo/encode_2024.LV.fibroblast.I/peak/rep1/encode_2024.LV.fibroblast.I.pval0.01.300K.bfilt.narrowPeak.gz
Blacklist-filtered narrowpeak (BigBed)gs://neuro-variants/data/processed/encode_2024/croo/encode_2024.LV.fibroblast.I/peak/rep1/encode_2024.LV.fibroblast.I.pval0.01.300K.bfilt.narrowPeak.bb
Blacklist-filtered narrowpeak (hammock)gs://neuro-variants/data/processed/encode_2024/croo/encode_2024.LV.fibroblast.I/peak/rep1/encode_2024.LV.fibroblast.I.pval0.01.300K.bfilt.narrowPeak.hammock.gz
Blacklist-filtered narrowpeak (starch)gs://neuro-variants/data/processed/encode_2024/croo/encode_2024.LV.fibroblast.I/peak/rep1/encode_2024.LV.fibroblast.I.pval0.01.300K.bfilt.narrowPeak.starch
Raw narrowpeakgs://neuro-variants/data/processed/encode_2024/croo/encode_2024.LV.fibroblast.I/peak/rep1/encode_2024.LV.fibroblast.I.pval0.01.300K.narrowPeak.gz
QC and logs
Replicate 1
Pseudorep 1 vs. pseudorep 2
Fraction of IDR peaks in readsgs://neuro-variants/data/processed/encode_2024/croo/encode_2024.LV.fibroblast.I/qc/rep1-pseudorep1_vs_2/rep1-pr1_vs_rep1-pr2.idr0.05.bfilt.frip.qc
Fraction of overlap peaks in readsgs://neuro-variants/data/processed/encode_2024/croo/encode_2024.LV.fibroblast.I/qc/rep1-pseudorep1_vs_2/rep1-pr1_vs_rep1-pr2.overlap.bfilt.frip.qc
IDR loggs://neuro-variants/data/processed/encode_2024/croo/encode_2024.LV.fibroblast.I/qc/rep1-pseudorep1_vs_2/rep1-pr1_vs_rep1-pr2.idr0.05.log
IDR plotgs://neuro-variants/data/processed/encode_2024/croo/encode_2024.LV.fibroblast.I/qc/rep1-pseudorep1_vs_2/rep1-pr1_vs_rep1-pr2.idr0.05.unthresholded-peaks.txt.png
Pseudoreplicate 1
Fraction of peaks in readsgs://neuro-variants/data/processed/encode_2024/croo/encode_2024.LV.fibroblast.I/qc/rep1/pseudorep1/encode_2024.LV.fibroblast.I.pr1.pval0.01.300K.bfilt.frip.qc
Pseudoreplicate 2
Fraction of peaks in readsgs://neuro-variants/data/processed/encode_2024/croo/encode_2024.LV.fibroblast.I/qc/rep1/pseudorep2/encode_2024.LV.fibroblast.I.pr2.pval0.01.300K.bfilt.frip.qc
Fraction of peaks in readsgs://neuro-variants/data/processed/encode_2024/croo/encode_2024.LV.fibroblast.I/qc/rep1/encode_2024.LV.fibroblast.I.pval0.01.300K.bfilt.frip.qc
Final HTML reportgs://neuro-variants/data/processed/encode_2024/croo/encode_2024.LV.fibroblast.I/qc/qc.html
Final QC JSON filegs://neuro-variants/data/processed/encode_2024/croo/encode_2024.LV.fibroblast.I/qc/qc.json
Reproducibility QC for IDR peaksgs://neuro-variants/data/processed/encode_2024/croo/encode_2024.LV.fibroblast.I/qc/overlap.reproducibility.qc
Reproducibility QC for overlap peaksgs://neuro-variants/data/processed/encode_2024/croo/encode_2024.LV.fibroblast.I/qc/idr.reproducibility.qc
Signal
Replicate 1
MACS2 signal track (fold-enrichment)gs://neuro-variants/data/processed/encode_2024/croo/encode_2024.LV.fibroblast.I/signal/rep1/encode_2024.LV.fibroblast.I.fc.signal.bigwig
MACS2 signal track (p-val)gs://neuro-variants/data/processed/encode_2024/croo/encode_2024.LV.fibroblast.I/signal/rep1/encode_2024.LV.fibroblast.I.pval.signal.bigwig
Task graph
D cluster_rep1 Replicate 1 -914665141324143220 macs2_signal_track 3187061342151567011 BW FC -914665141324143220->3187061342151567011 -7526683201512133978 BW p-val -914665141324143220->-7526683201512133978 -585496224325838188 call_peak 3400161784356867689 Peak (bfilt) -585496224325838188->3400161784356867689 -7270892785541502299 Peak -585496224325838188->-7270892785541502299 7377421490793022817 reproducibility_overlap -7270892785541502299->7377421490793022817 7391216514279187109 reproducibility_idr -7270892785541502299->7391216514279187109 -7745246340573106682 TAG-ALIGN -7745246340573106682->-914665141324143220 -7745246340573106682->-585496224325838188 -7745246340573106682->7377421490793022817 -7745246340573106682->7391216514279187109 3880421282384873649 Overlap Peak optimal 7377421490793022817->3880421282384873649 6638738702869895078 Overlap reproducibility 7377421490793022817->6638738702869895078 6364966171825152557 IDR Peak optimal 7391216514279187109->6364966171825152557 -3087311340106431181 IDR reproducibility 7391216514279187109->-3087311340106431181