File table
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FilesPath
Alignment
Replicate 1
Pseudoreplicate 1
TAG-ALIGNgs://neuro-variants/data/processed/ameen_2022/croo/ameen_2022.Endo1/align/rep1/pseudorep1/ameen_2022.Endo1.pr1.tagAlign.gz
Pseudoreplicate 2
TAG-ALIGNgs://neuro-variants/data/processed/ameen_2022/croo/ameen_2022.Endo1/align/rep1/pseudorep2/ameen_2022.Endo1.pr2.tagAlign.gz
Peak
IDR reproducibility
Conservative peakgs://neuro-variants/data/processed/ameen_2022/croo/ameen_2022.Endo1/peak/idr_reproducibility/idr.conservative_peak.narrowPeak.gz
Conservative peak (BigBed)gs://neuro-variants/data/processed/ameen_2022/croo/ameen_2022.Endo1/peak/idr_reproducibility/idr.conservative_peak.narrowPeak.bb
Conservative peak (hammock)gs://neuro-variants/data/processed/ameen_2022/croo/ameen_2022.Endo1/peak/idr_reproducibility/idr.conservative_peak.narrowPeak.hammock.gz
Conservative peak (starch)gs://neuro-variants/data/processed/ameen_2022/croo/ameen_2022.Endo1/peak/idr_reproducibility/idr.conservative_peak.narrowPeak.starch
Optimal peakgs://neuro-variants/data/processed/ameen_2022/croo/ameen_2022.Endo1/peak/idr_reproducibility/idr.optimal_peak.narrowPeak.gz
Optimal peak (BigBed)gs://neuro-variants/data/processed/ameen_2022/croo/ameen_2022.Endo1/peak/idr_reproducibility/idr.optimal_peak.narrowPeak.bb
Optimal peak (hammock)gs://neuro-variants/data/processed/ameen_2022/croo/ameen_2022.Endo1/peak/idr_reproducibility/idr.optimal_peak.narrowPeak.hammock.gz
Optimal peak (starch)gs://neuro-variants/data/processed/ameen_2022/croo/ameen_2022.Endo1/peak/idr_reproducibility/idr.optimal_peak.narrowPeak.starch
Overlap reproducibility
Conservative peakgs://neuro-variants/data/processed/ameen_2022/croo/ameen_2022.Endo1/peak/overlap_reproducibility/overlap.conservative_peak.narrowPeak.gz
Conservative peak (BigBed)gs://neuro-variants/data/processed/ameen_2022/croo/ameen_2022.Endo1/peak/overlap_reproducibility/overlap.conservative_peak.narrowPeak.bb
Conservative peak (hammock)gs://neuro-variants/data/processed/ameen_2022/croo/ameen_2022.Endo1/peak/overlap_reproducibility/overlap.conservative_peak.narrowPeak.hammock.gz
Conservative peak (starch)gs://neuro-variants/data/processed/ameen_2022/croo/ameen_2022.Endo1/peak/overlap_reproducibility/overlap.conservative_peak.narrowPeak.starch
Optimal peakgs://neuro-variants/data/processed/ameen_2022/croo/ameen_2022.Endo1/peak/overlap_reproducibility/overlap.optimal_peak.narrowPeak.gz
Optimal peak (BigBed)gs://neuro-variants/data/processed/ameen_2022/croo/ameen_2022.Endo1/peak/overlap_reproducibility/overlap.optimal_peak.narrowPeak.bb
Optimal peak (hammock)gs://neuro-variants/data/processed/ameen_2022/croo/ameen_2022.Endo1/peak/overlap_reproducibility/overlap.optimal_peak.narrowPeak.hammock.gz
Optimal peak (starch)gs://neuro-variants/data/processed/ameen_2022/croo/ameen_2022.Endo1/peak/overlap_reproducibility/overlap.optimal_peak.narrowPeak.starch
Replicate 1
Pseudorep 1 vs. pseudorep 2
Blacklist-filtered IDR peakgs://neuro-variants/data/processed/ameen_2022/croo/ameen_2022.Endo1/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/ameen_2022/croo/ameen_2022.Endo1/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/ameen_2022/croo/ameen_2022.Endo1/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/ameen_2022/croo/ameen_2022.Endo1/peak/rep1-pseudorep1_vs_2/rep1-pr1_vs_rep1-pr2.idr0.05.bfilt.narrowPeak.starch
Blacklist-filtered overlap peakgs://neuro-variants/data/processed/ameen_2022/croo/ameen_2022.Endo1/peak/rep1-pseudorep1_vs_2/rep1-pr1_vs_rep1-pr2.overlap.bfilt.narrowPeak.gz
Blacklist-filtered overlap peak (BigBed)gs://neuro-variants/data/processed/ameen_2022/croo/ameen_2022.Endo1/peak/rep1-pseudorep1_vs_2/rep1-pr1_vs_rep1-pr2.overlap.bfilt.narrowPeak.bb
Blacklist-filtered overlap peak (hammock)gs://neuro-variants/data/processed/ameen_2022/croo/ameen_2022.Endo1/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/ameen_2022/croo/ameen_2022.Endo1/peak/rep1-pseudorep1_vs_2/rep1-pr1_vs_rep1-pr2.overlap.bfilt.narrowPeak.starch
Unthresholded raw IDR peakgs://neuro-variants/data/processed/ameen_2022/croo/ameen_2022.Endo1/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/ameen_2022/croo/ameen_2022.Endo1/peak/rep1/pseudorep1/ameen_2022.Endo1.pr1.pval0.01.300K.bfilt.narrowPeak.gz
Blacklist-filtered narrowpeak (BigBed)gs://neuro-variants/data/processed/ameen_2022/croo/ameen_2022.Endo1/peak/rep1/pseudorep1/ameen_2022.Endo1.pr1.pval0.01.300K.bfilt.narrowPeak.bb
Blacklist-filtered narrowpeak (hammock)gs://neuro-variants/data/processed/ameen_2022/croo/ameen_2022.Endo1/peak/rep1/pseudorep1/ameen_2022.Endo1.pr1.pval0.01.300K.bfilt.narrowPeak.hammock.gz
Blacklist-filtered narrowpeak (starch)gs://neuro-variants/data/processed/ameen_2022/croo/ameen_2022.Endo1/peak/rep1/pseudorep1/ameen_2022.Endo1.pr1.pval0.01.300K.bfilt.narrowPeak.starch
Raw narrowpeakgs://neuro-variants/data/processed/ameen_2022/croo/ameen_2022.Endo1/peak/rep1/pseudorep1/ameen_2022.Endo1.pr1.pval0.01.300K.narrowPeak.gz
Pseudoreplicate 2
Blacklist-filtered narrowpeakgs://neuro-variants/data/processed/ameen_2022/croo/ameen_2022.Endo1/peak/rep1/pseudorep2/ameen_2022.Endo1.pr2.pval0.01.300K.bfilt.narrowPeak.gz
Blacklist-filtered narrowpeak (BigBed)gs://neuro-variants/data/processed/ameen_2022/croo/ameen_2022.Endo1/peak/rep1/pseudorep2/ameen_2022.Endo1.pr2.pval0.01.300K.bfilt.narrowPeak.bb
Blacklist-filtered narrowpeak (hammock)gs://neuro-variants/data/processed/ameen_2022/croo/ameen_2022.Endo1/peak/rep1/pseudorep2/ameen_2022.Endo1.pr2.pval0.01.300K.bfilt.narrowPeak.hammock.gz
Blacklist-filtered narrowpeak (starch)gs://neuro-variants/data/processed/ameen_2022/croo/ameen_2022.Endo1/peak/rep1/pseudorep2/ameen_2022.Endo1.pr2.pval0.01.300K.bfilt.narrowPeak.starch
Raw narrowpeakgs://neuro-variants/data/processed/ameen_2022/croo/ameen_2022.Endo1/peak/rep1/pseudorep2/ameen_2022.Endo1.pr2.pval0.01.300K.narrowPeak.gz
Blacklist-filtered narrowpeakgs://neuro-variants/data/processed/ameen_2022/croo/ameen_2022.Endo1/peak/rep1/ameen_2022.Endo1.pval0.01.300K.bfilt.narrowPeak.gz
Blacklist-filtered narrowpeak (BigBed)gs://neuro-variants/data/processed/ameen_2022/croo/ameen_2022.Endo1/peak/rep1/ameen_2022.Endo1.pval0.01.300K.bfilt.narrowPeak.bb
Blacklist-filtered narrowpeak (hammock)gs://neuro-variants/data/processed/ameen_2022/croo/ameen_2022.Endo1/peak/rep1/ameen_2022.Endo1.pval0.01.300K.bfilt.narrowPeak.hammock.gz
Blacklist-filtered narrowpeak (starch)gs://neuro-variants/data/processed/ameen_2022/croo/ameen_2022.Endo1/peak/rep1/ameen_2022.Endo1.pval0.01.300K.bfilt.narrowPeak.starch
Raw narrowpeakgs://neuro-variants/data/processed/ameen_2022/croo/ameen_2022.Endo1/peak/rep1/ameen_2022.Endo1.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/ameen_2022/croo/ameen_2022.Endo1/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/ameen_2022/croo/ameen_2022.Endo1/qc/rep1-pseudorep1_vs_2/rep1-pr1_vs_rep1-pr2.overlap.bfilt.frip.qc
IDR loggs://neuro-variants/data/processed/ameen_2022/croo/ameen_2022.Endo1/qc/rep1-pseudorep1_vs_2/rep1-pr1_vs_rep1-pr2.idr0.05.log
IDR plotgs://neuro-variants/data/processed/ameen_2022/croo/ameen_2022.Endo1/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/ameen_2022/croo/ameen_2022.Endo1/qc/rep1/pseudorep1/ameen_2022.Endo1.pr1.pval0.01.300K.bfilt.frip.qc
Pseudoreplicate 2
Fraction of peaks in readsgs://neuro-variants/data/processed/ameen_2022/croo/ameen_2022.Endo1/qc/rep1/pseudorep2/ameen_2022.Endo1.pr2.pval0.01.300K.bfilt.frip.qc
Fraction of peaks in readsgs://neuro-variants/data/processed/ameen_2022/croo/ameen_2022.Endo1/qc/rep1/ameen_2022.Endo1.pval0.01.300K.bfilt.frip.qc
Final HTML reportgs://neuro-variants/data/processed/ameen_2022/croo/ameen_2022.Endo1/qc/qc.html
Final QC JSON filegs://neuro-variants/data/processed/ameen_2022/croo/ameen_2022.Endo1/qc/qc.json
Reproducibility QC for IDR peaksgs://neuro-variants/data/processed/ameen_2022/croo/ameen_2022.Endo1/qc/overlap.reproducibility.qc
Reproducibility QC for overlap peaksgs://neuro-variants/data/processed/ameen_2022/croo/ameen_2022.Endo1/qc/idr.reproducibility.qc
Signal
Replicate 1
MACS2 signal track (fold-enrichment)gs://neuro-variants/data/processed/ameen_2022/croo/ameen_2022.Endo1/signal/rep1/ameen_2022.Endo1.fc.signal.bigwig
MACS2 signal track (p-val)gs://neuro-variants/data/processed/ameen_2022/croo/ameen_2022.Endo1/signal/rep1/ameen_2022.Endo1.pval.signal.bigwig
Task graph
D cluster_rep1 Replicate 1 -4565589799033070314 macs2_signal_track -2087004810096749024 BW p-val -4565589799033070314->-2087004810096749024 2463090145455247468 BW FC -4565589799033070314->2463090145455247468 -8620651859598869922 call_peak -4021401387696245148 Peak (bfilt) -8620651859598869922->-4021401387696245148 4993056235667812597 Peak -8620651859598869922->4993056235667812597 2893758580079527549 reproducibility_overlap 4993056235667812597->2893758580079527549 6994715488543624480 reproducibility_idr 4993056235667812597->6994715488543624480 -926460636072215907 TAG-ALIGN -926460636072215907->-4565589799033070314 -926460636072215907->-8620651859598869922 -926460636072215907->2893758580079527549 -926460636072215907->6994715488543624480 5573586555336544319 Overlap Peak optimal 2893758580079527549->5573586555336544319 3212266546397317739 Overlap reproducibility 2893758580079527549->3212266546397317739 -502312826661540346 IDR Peak optimal 6994715488543624480->-502312826661540346 5741775954779792172 IDR reproducibility 6994715488543624480->5741775954779792172