File table
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FilesPath
Alignment
Replicate 1
Pseudoreplicate 1
TAG-ALIGNgs://neuro-variants/data/processed/ameen_2022/croo/ameen_2022.Endo2/align/rep1/pseudorep1/ameen_2022.Endo2.pr1.tagAlign.gz
Pseudoreplicate 2
TAG-ALIGNgs://neuro-variants/data/processed/ameen_2022/croo/ameen_2022.Endo2/align/rep1/pseudorep2/ameen_2022.Endo2.pr2.tagAlign.gz
Peak
IDR reproducibility
Conservative peakgs://neuro-variants/data/processed/ameen_2022/croo/ameen_2022.Endo2/peak/idr_reproducibility/idr.conservative_peak.narrowPeak.gz
Conservative peak (BigBed)gs://neuro-variants/data/processed/ameen_2022/croo/ameen_2022.Endo2/peak/idr_reproducibility/idr.conservative_peak.narrowPeak.bb
Conservative peak (hammock)gs://neuro-variants/data/processed/ameen_2022/croo/ameen_2022.Endo2/peak/idr_reproducibility/idr.conservative_peak.narrowPeak.hammock.gz
Conservative peak (starch)gs://neuro-variants/data/processed/ameen_2022/croo/ameen_2022.Endo2/peak/idr_reproducibility/idr.conservative_peak.narrowPeak.starch
Optimal peakgs://neuro-variants/data/processed/ameen_2022/croo/ameen_2022.Endo2/peak/idr_reproducibility/idr.optimal_peak.narrowPeak.gz
Optimal peak (BigBed)gs://neuro-variants/data/processed/ameen_2022/croo/ameen_2022.Endo2/peak/idr_reproducibility/idr.optimal_peak.narrowPeak.bb
Optimal peak (hammock)gs://neuro-variants/data/processed/ameen_2022/croo/ameen_2022.Endo2/peak/idr_reproducibility/idr.optimal_peak.narrowPeak.hammock.gz
Optimal peak (starch)gs://neuro-variants/data/processed/ameen_2022/croo/ameen_2022.Endo2/peak/idr_reproducibility/idr.optimal_peak.narrowPeak.starch
Overlap reproducibility
Conservative peakgs://neuro-variants/data/processed/ameen_2022/croo/ameen_2022.Endo2/peak/overlap_reproducibility/overlap.conservative_peak.narrowPeak.gz
Conservative peak (BigBed)gs://neuro-variants/data/processed/ameen_2022/croo/ameen_2022.Endo2/peak/overlap_reproducibility/overlap.conservative_peak.narrowPeak.bb
Conservative peak (hammock)gs://neuro-variants/data/processed/ameen_2022/croo/ameen_2022.Endo2/peak/overlap_reproducibility/overlap.conservative_peak.narrowPeak.hammock.gz
Conservative peak (starch)gs://neuro-variants/data/processed/ameen_2022/croo/ameen_2022.Endo2/peak/overlap_reproducibility/overlap.conservative_peak.narrowPeak.starch
Optimal peakgs://neuro-variants/data/processed/ameen_2022/croo/ameen_2022.Endo2/peak/overlap_reproducibility/overlap.optimal_peak.narrowPeak.gz
Optimal peak (BigBed)gs://neuro-variants/data/processed/ameen_2022/croo/ameen_2022.Endo2/peak/overlap_reproducibility/overlap.optimal_peak.narrowPeak.bb
Optimal peak (hammock)gs://neuro-variants/data/processed/ameen_2022/croo/ameen_2022.Endo2/peak/overlap_reproducibility/overlap.optimal_peak.narrowPeak.hammock.gz
Optimal peak (starch)gs://neuro-variants/data/processed/ameen_2022/croo/ameen_2022.Endo2/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.Endo2/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.Endo2/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.Endo2/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.Endo2/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.Endo2/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.Endo2/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.Endo2/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.Endo2/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.Endo2/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.Endo2/peak/rep1/pseudorep1/ameen_2022.Endo2.pr1.pval0.01.300K.bfilt.narrowPeak.gz
Blacklist-filtered narrowpeak (BigBed)gs://neuro-variants/data/processed/ameen_2022/croo/ameen_2022.Endo2/peak/rep1/pseudorep1/ameen_2022.Endo2.pr1.pval0.01.300K.bfilt.narrowPeak.bb
Blacklist-filtered narrowpeak (hammock)gs://neuro-variants/data/processed/ameen_2022/croo/ameen_2022.Endo2/peak/rep1/pseudorep1/ameen_2022.Endo2.pr1.pval0.01.300K.bfilt.narrowPeak.hammock.gz
Blacklist-filtered narrowpeak (starch)gs://neuro-variants/data/processed/ameen_2022/croo/ameen_2022.Endo2/peak/rep1/pseudorep1/ameen_2022.Endo2.pr1.pval0.01.300K.bfilt.narrowPeak.starch
Raw narrowpeakgs://neuro-variants/data/processed/ameen_2022/croo/ameen_2022.Endo2/peak/rep1/pseudorep1/ameen_2022.Endo2.pr1.pval0.01.300K.narrowPeak.gz
Pseudoreplicate 2
Blacklist-filtered narrowpeakgs://neuro-variants/data/processed/ameen_2022/croo/ameen_2022.Endo2/peak/rep1/pseudorep2/ameen_2022.Endo2.pr2.pval0.01.300K.bfilt.narrowPeak.gz
Blacklist-filtered narrowpeak (BigBed)gs://neuro-variants/data/processed/ameen_2022/croo/ameen_2022.Endo2/peak/rep1/pseudorep2/ameen_2022.Endo2.pr2.pval0.01.300K.bfilt.narrowPeak.bb
Blacklist-filtered narrowpeak (hammock)gs://neuro-variants/data/processed/ameen_2022/croo/ameen_2022.Endo2/peak/rep1/pseudorep2/ameen_2022.Endo2.pr2.pval0.01.300K.bfilt.narrowPeak.hammock.gz
Blacklist-filtered narrowpeak (starch)gs://neuro-variants/data/processed/ameen_2022/croo/ameen_2022.Endo2/peak/rep1/pseudorep2/ameen_2022.Endo2.pr2.pval0.01.300K.bfilt.narrowPeak.starch
Raw narrowpeakgs://neuro-variants/data/processed/ameen_2022/croo/ameen_2022.Endo2/peak/rep1/pseudorep2/ameen_2022.Endo2.pr2.pval0.01.300K.narrowPeak.gz
Blacklist-filtered narrowpeakgs://neuro-variants/data/processed/ameen_2022/croo/ameen_2022.Endo2/peak/rep1/ameen_2022.Endo2.pval0.01.300K.bfilt.narrowPeak.gz
Blacklist-filtered narrowpeak (BigBed)gs://neuro-variants/data/processed/ameen_2022/croo/ameen_2022.Endo2/peak/rep1/ameen_2022.Endo2.pval0.01.300K.bfilt.narrowPeak.bb
Blacklist-filtered narrowpeak (hammock)gs://neuro-variants/data/processed/ameen_2022/croo/ameen_2022.Endo2/peak/rep1/ameen_2022.Endo2.pval0.01.300K.bfilt.narrowPeak.hammock.gz
Blacklist-filtered narrowpeak (starch)gs://neuro-variants/data/processed/ameen_2022/croo/ameen_2022.Endo2/peak/rep1/ameen_2022.Endo2.pval0.01.300K.bfilt.narrowPeak.starch
Raw narrowpeakgs://neuro-variants/data/processed/ameen_2022/croo/ameen_2022.Endo2/peak/rep1/ameen_2022.Endo2.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.Endo2/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.Endo2/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.Endo2/qc/rep1-pseudorep1_vs_2/rep1-pr1_vs_rep1-pr2.idr0.05.log
IDR plotgs://neuro-variants/data/processed/ameen_2022/croo/ameen_2022.Endo2/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.Endo2/qc/rep1/pseudorep1/ameen_2022.Endo2.pr1.pval0.01.300K.bfilt.frip.qc
Pseudoreplicate 2
Fraction of peaks in readsgs://neuro-variants/data/processed/ameen_2022/croo/ameen_2022.Endo2/qc/rep1/pseudorep2/ameen_2022.Endo2.pr2.pval0.01.300K.bfilt.frip.qc
Fraction of peaks in readsgs://neuro-variants/data/processed/ameen_2022/croo/ameen_2022.Endo2/qc/rep1/ameen_2022.Endo2.pval0.01.300K.bfilt.frip.qc
Final HTML reportgs://neuro-variants/data/processed/ameen_2022/croo/ameen_2022.Endo2/qc/qc.html
Final QC JSON filegs://neuro-variants/data/processed/ameen_2022/croo/ameen_2022.Endo2/qc/qc.json
Reproducibility QC for IDR peaksgs://neuro-variants/data/processed/ameen_2022/croo/ameen_2022.Endo2/qc/overlap.reproducibility.qc
Reproducibility QC for overlap peaksgs://neuro-variants/data/processed/ameen_2022/croo/ameen_2022.Endo2/qc/idr.reproducibility.qc
Signal
Replicate 1
MACS2 signal track (fold-enrichment)gs://neuro-variants/data/processed/ameen_2022/croo/ameen_2022.Endo2/signal/rep1/ameen_2022.Endo2.fc.signal.bigwig
MACS2 signal track (p-val)gs://neuro-variants/data/processed/ameen_2022/croo/ameen_2022.Endo2/signal/rep1/ameen_2022.Endo2.pval.signal.bigwig
Task graph
D cluster_rep1 Replicate 1 3115956702202528667 macs2_signal_track 3472039993577659483 BW p-val 3115956702202528667->3472039993577659483 -9040629056769083262 BW FC 3115956702202528667->-9040629056769083262 1614221825483035547 call_peak 656620050791129680 Peak (bfilt) 1614221825483035547->656620050791129680 -7221913741622172861 Peak 1614221825483035547->-7221913741622172861 -4857333479472583370 reproducibility_overlap -7221913741622172861->-4857333479472583370 -274941299132697488 reproducibility_idr -7221913741622172861->-274941299132697488 -4426167999859566328 TAG-ALIGN -4426167999859566328->3115956702202528667 -4426167999859566328->1614221825483035547 -4426167999859566328->-4857333479472583370 -4426167999859566328->-274941299132697488 -1273422311488919037 Overlap Peak optimal -4857333479472583370->-1273422311488919037 7980476252108481840 Overlap reproducibility -4857333479472583370->7980476252108481840 -3076161317126778565 IDR Peak optimal -274941299132697488->-3076161317126778565 -546275800992197195 IDR reproducibility -274941299132697488->-546275800992197195