File table
Expand all    Collapse all
FilesPath
Alignment
Replicate 1
Pseudoreplicate 1
TAG-ALIGNgs://neuro-variants/data/processed/roussos_2024/croo/roussos_2024.infant.OPC/align/rep1/pseudorep1/roussos_2024.infant.OPC.pr1.tagAlign.gz
Pseudoreplicate 2
TAG-ALIGNgs://neuro-variants/data/processed/roussos_2024/croo/roussos_2024.infant.OPC/align/rep1/pseudorep2/roussos_2024.infant.OPC.pr2.tagAlign.gz
Peak
IDR reproducibility
Conservative peakgs://neuro-variants/data/processed/roussos_2024/croo/roussos_2024.infant.OPC/peak/idr_reproducibility/idr.conservative_peak.narrowPeak.gz
Conservative peak (BigBed)gs://neuro-variants/data/processed/roussos_2024/croo/roussos_2024.infant.OPC/peak/idr_reproducibility/idr.conservative_peak.narrowPeak.bb
Conservative peak (hammock)gs://neuro-variants/data/processed/roussos_2024/croo/roussos_2024.infant.OPC/peak/idr_reproducibility/idr.conservative_peak.narrowPeak.hammock.gz
Conservative peak (starch)gs://neuro-variants/data/processed/roussos_2024/croo/roussos_2024.infant.OPC/peak/idr_reproducibility/idr.conservative_peak.narrowPeak.starch
Optimal peakgs://neuro-variants/data/processed/roussos_2024/croo/roussos_2024.infant.OPC/peak/idr_reproducibility/idr.optimal_peak.narrowPeak.gz
Optimal peak (BigBed)gs://neuro-variants/data/processed/roussos_2024/croo/roussos_2024.infant.OPC/peak/idr_reproducibility/idr.optimal_peak.narrowPeak.bb
Optimal peak (hammock)gs://neuro-variants/data/processed/roussos_2024/croo/roussos_2024.infant.OPC/peak/idr_reproducibility/idr.optimal_peak.narrowPeak.hammock.gz
Optimal peak (starch)gs://neuro-variants/data/processed/roussos_2024/croo/roussos_2024.infant.OPC/peak/idr_reproducibility/idr.optimal_peak.narrowPeak.starch
Overlap reproducibility
Conservative peakgs://neuro-variants/data/processed/roussos_2024/croo/roussos_2024.infant.OPC/peak/overlap_reproducibility/overlap.conservative_peak.narrowPeak.gz
Conservative peak (BigBed)gs://neuro-variants/data/processed/roussos_2024/croo/roussos_2024.infant.OPC/peak/overlap_reproducibility/overlap.conservative_peak.narrowPeak.bb
Conservative peak (hammock)gs://neuro-variants/data/processed/roussos_2024/croo/roussos_2024.infant.OPC/peak/overlap_reproducibility/overlap.conservative_peak.narrowPeak.hammock.gz
Conservative peak (starch)gs://neuro-variants/data/processed/roussos_2024/croo/roussos_2024.infant.OPC/peak/overlap_reproducibility/overlap.conservative_peak.narrowPeak.starch
Optimal peakgs://neuro-variants/data/processed/roussos_2024/croo/roussos_2024.infant.OPC/peak/overlap_reproducibility/overlap.optimal_peak.narrowPeak.gz
Optimal peak (BigBed)gs://neuro-variants/data/processed/roussos_2024/croo/roussos_2024.infant.OPC/peak/overlap_reproducibility/overlap.optimal_peak.narrowPeak.bb
Optimal peak (hammock)gs://neuro-variants/data/processed/roussos_2024/croo/roussos_2024.infant.OPC/peak/overlap_reproducibility/overlap.optimal_peak.narrowPeak.hammock.gz
Optimal peak (starch)gs://neuro-variants/data/processed/roussos_2024/croo/roussos_2024.infant.OPC/peak/overlap_reproducibility/overlap.optimal_peak.narrowPeak.starch
Replicate 1
Pseudorep 1 vs. pseudorep 2
Blacklist-filtered IDR peakgs://neuro-variants/data/processed/roussos_2024/croo/roussos_2024.infant.OPC/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/roussos_2024/croo/roussos_2024.infant.OPC/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/roussos_2024/croo/roussos_2024.infant.OPC/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/roussos_2024/croo/roussos_2024.infant.OPC/peak/rep1-pseudorep1_vs_2/rep1-pr1_vs_rep1-pr2.idr0.05.bfilt.narrowPeak.starch
Blacklist-filtered overlap peakgs://neuro-variants/data/processed/roussos_2024/croo/roussos_2024.infant.OPC/peak/rep1-pseudorep1_vs_2/rep1-pr1_vs_rep1-pr2.overlap.bfilt.narrowPeak.gz
Blacklist-filtered overlap peak (BigBed)gs://neuro-variants/data/processed/roussos_2024/croo/roussos_2024.infant.OPC/peak/rep1-pseudorep1_vs_2/rep1-pr1_vs_rep1-pr2.overlap.bfilt.narrowPeak.bb
Blacklist-filtered overlap peak (hammock)gs://neuro-variants/data/processed/roussos_2024/croo/roussos_2024.infant.OPC/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/roussos_2024/croo/roussos_2024.infant.OPC/peak/rep1-pseudorep1_vs_2/rep1-pr1_vs_rep1-pr2.overlap.bfilt.narrowPeak.starch
Unthresholded raw IDR peakgs://neuro-variants/data/processed/roussos_2024/croo/roussos_2024.infant.OPC/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/roussos_2024/croo/roussos_2024.infant.OPC/peak/rep1/pseudorep1/roussos_2024.infant.OPC.pr1.pval0.01.300K.bfilt.narrowPeak.gz
Blacklist-filtered narrowpeak (BigBed)gs://neuro-variants/data/processed/roussos_2024/croo/roussos_2024.infant.OPC/peak/rep1/pseudorep1/roussos_2024.infant.OPC.pr1.pval0.01.300K.bfilt.narrowPeak.bb
Blacklist-filtered narrowpeak (hammock)gs://neuro-variants/data/processed/roussos_2024/croo/roussos_2024.infant.OPC/peak/rep1/pseudorep1/roussos_2024.infant.OPC.pr1.pval0.01.300K.bfilt.narrowPeak.hammock.gz
Blacklist-filtered narrowpeak (starch)gs://neuro-variants/data/processed/roussos_2024/croo/roussos_2024.infant.OPC/peak/rep1/pseudorep1/roussos_2024.infant.OPC.pr1.pval0.01.300K.bfilt.narrowPeak.starch
Raw narrowpeakgs://neuro-variants/data/processed/roussos_2024/croo/roussos_2024.infant.OPC/peak/rep1/pseudorep1/roussos_2024.infant.OPC.pr1.pval0.01.300K.narrowPeak.gz
Pseudoreplicate 2
Blacklist-filtered narrowpeakgs://neuro-variants/data/processed/roussos_2024/croo/roussos_2024.infant.OPC/peak/rep1/pseudorep2/roussos_2024.infant.OPC.pr2.pval0.01.300K.bfilt.narrowPeak.gz
Blacklist-filtered narrowpeak (BigBed)gs://neuro-variants/data/processed/roussos_2024/croo/roussos_2024.infant.OPC/peak/rep1/pseudorep2/roussos_2024.infant.OPC.pr2.pval0.01.300K.bfilt.narrowPeak.bb
Blacklist-filtered narrowpeak (hammock)gs://neuro-variants/data/processed/roussos_2024/croo/roussos_2024.infant.OPC/peak/rep1/pseudorep2/roussos_2024.infant.OPC.pr2.pval0.01.300K.bfilt.narrowPeak.hammock.gz
Blacklist-filtered narrowpeak (starch)gs://neuro-variants/data/processed/roussos_2024/croo/roussos_2024.infant.OPC/peak/rep1/pseudorep2/roussos_2024.infant.OPC.pr2.pval0.01.300K.bfilt.narrowPeak.starch
Raw narrowpeakgs://neuro-variants/data/processed/roussos_2024/croo/roussos_2024.infant.OPC/peak/rep1/pseudorep2/roussos_2024.infant.OPC.pr2.pval0.01.300K.narrowPeak.gz
Blacklist-filtered narrowpeakgs://neuro-variants/data/processed/roussos_2024/croo/roussos_2024.infant.OPC/peak/rep1/roussos_2024.infant.OPC.pval0.01.300K.bfilt.narrowPeak.gz
Blacklist-filtered narrowpeak (BigBed)gs://neuro-variants/data/processed/roussos_2024/croo/roussos_2024.infant.OPC/peak/rep1/roussos_2024.infant.OPC.pval0.01.300K.bfilt.narrowPeak.bb
Blacklist-filtered narrowpeak (hammock)gs://neuro-variants/data/processed/roussos_2024/croo/roussos_2024.infant.OPC/peak/rep1/roussos_2024.infant.OPC.pval0.01.300K.bfilt.narrowPeak.hammock.gz
Blacklist-filtered narrowpeak (starch)gs://neuro-variants/data/processed/roussos_2024/croo/roussos_2024.infant.OPC/peak/rep1/roussos_2024.infant.OPC.pval0.01.300K.bfilt.narrowPeak.starch
Raw narrowpeakgs://neuro-variants/data/processed/roussos_2024/croo/roussos_2024.infant.OPC/peak/rep1/roussos_2024.infant.OPC.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/roussos_2024/croo/roussos_2024.infant.OPC/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/roussos_2024/croo/roussos_2024.infant.OPC/qc/rep1-pseudorep1_vs_2/rep1-pr1_vs_rep1-pr2.overlap.bfilt.frip.qc
IDR loggs://neuro-variants/data/processed/roussos_2024/croo/roussos_2024.infant.OPC/qc/rep1-pseudorep1_vs_2/rep1-pr1_vs_rep1-pr2.idr0.05.log
IDR plotgs://neuro-variants/data/processed/roussos_2024/croo/roussos_2024.infant.OPC/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/roussos_2024/croo/roussos_2024.infant.OPC/qc/rep1/pseudorep1/roussos_2024.infant.OPC.pr1.pval0.01.300K.bfilt.frip.qc
Pseudoreplicate 2
Fraction of peaks in readsgs://neuro-variants/data/processed/roussos_2024/croo/roussos_2024.infant.OPC/qc/rep1/pseudorep2/roussos_2024.infant.OPC.pr2.pval0.01.300K.bfilt.frip.qc
Fraction of peaks in readsgs://neuro-variants/data/processed/roussos_2024/croo/roussos_2024.infant.OPC/qc/rep1/roussos_2024.infant.OPC.pval0.01.300K.bfilt.frip.qc
Final HTML reportgs://neuro-variants/data/processed/roussos_2024/croo/roussos_2024.infant.OPC/qc/qc.html
Final QC JSON filegs://neuro-variants/data/processed/roussos_2024/croo/roussos_2024.infant.OPC/qc/qc.json
Reproducibility QC for IDR peaksgs://neuro-variants/data/processed/roussos_2024/croo/roussos_2024.infant.OPC/qc/overlap.reproducibility.qc
Reproducibility QC for overlap peaksgs://neuro-variants/data/processed/roussos_2024/croo/roussos_2024.infant.OPC/qc/idr.reproducibility.qc
Signal
Replicate 1
MACS2 signal track (fold-enrichment)gs://neuro-variants/data/processed/roussos_2024/croo/roussos_2024.infant.OPC/signal/rep1/roussos_2024.infant.OPC.fc.signal.bigwig
MACS2 signal track (p-val)gs://neuro-variants/data/processed/roussos_2024/croo/roussos_2024.infant.OPC/signal/rep1/roussos_2024.infant.OPC.pval.signal.bigwig
Task graph
D cluster_rep1 Replicate 1 4675430748793097108 macs2_signal_track -3663753601691097431 BW FC 4675430748793097108->-3663753601691097431 -2153511099245648478 BW p-val 4675430748793097108->-2153511099245648478 2988041736667476769 call_peak 3884851627164418275 Peak (bfilt) 2988041736667476769->3884851627164418275 -9072065384255901480 Peak 2988041736667476769->-9072065384255901480 -2567616735484881037 reproducibility_overlap -9072065384255901480->-2567616735484881037 -1302996366625249821 reproducibility_idr -9072065384255901480->-1302996366625249821 9061296657101331630 TAG-ALIGN 9061296657101331630->4675430748793097108 9061296657101331630->2988041736667476769 9061296657101331630->-2567616735484881037 9061296657101331630->-1302996366625249821 -903397018971773554 Overlap Peak optimal -2567616735484881037->-903397018971773554 -178731632338569975 Overlap reproducibility -2567616735484881037->-178731632338569975 5458063670550479833 IDR Peak optimal -1302996366625249821->5458063670550479833 3132929455185038710 IDR reproducibility -1302996366625249821->3132929455185038710