File table
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FilesPath
Alignment
Replicate 1
Pseudoreplicate 1
TAG-ALIGNgs://neuro-variants/data/processed/roussos_2024/croo/roussos_2024.elderly.GABA/align/rep1/pseudorep1/roussos_2024.elderly.GABA.pr1.tagAlign.gz
Pseudoreplicate 2
TAG-ALIGNgs://neuro-variants/data/processed/roussos_2024/croo/roussos_2024.elderly.GABA/align/rep1/pseudorep2/roussos_2024.elderly.GABA.pr2.tagAlign.gz
Peak
IDR reproducibility
Conservative peakgs://neuro-variants/data/processed/roussos_2024/croo/roussos_2024.elderly.GABA/peak/idr_reproducibility/idr.conservative_peak.narrowPeak.gz
Conservative peak (BigBed)gs://neuro-variants/data/processed/roussos_2024/croo/roussos_2024.elderly.GABA/peak/idr_reproducibility/idr.conservative_peak.narrowPeak.bb
Conservative peak (hammock)gs://neuro-variants/data/processed/roussos_2024/croo/roussos_2024.elderly.GABA/peak/idr_reproducibility/idr.conservative_peak.narrowPeak.hammock.gz
Conservative peak (starch)gs://neuro-variants/data/processed/roussos_2024/croo/roussos_2024.elderly.GABA/peak/idr_reproducibility/idr.conservative_peak.narrowPeak.starch
Optimal peakgs://neuro-variants/data/processed/roussos_2024/croo/roussos_2024.elderly.GABA/peak/idr_reproducibility/idr.optimal_peak.narrowPeak.gz
Optimal peak (BigBed)gs://neuro-variants/data/processed/roussos_2024/croo/roussos_2024.elderly.GABA/peak/idr_reproducibility/idr.optimal_peak.narrowPeak.bb
Optimal peak (hammock)gs://neuro-variants/data/processed/roussos_2024/croo/roussos_2024.elderly.GABA/peak/idr_reproducibility/idr.optimal_peak.narrowPeak.hammock.gz
Optimal peak (starch)gs://neuro-variants/data/processed/roussos_2024/croo/roussos_2024.elderly.GABA/peak/idr_reproducibility/idr.optimal_peak.narrowPeak.starch
Overlap reproducibility
Conservative peakgs://neuro-variants/data/processed/roussos_2024/croo/roussos_2024.elderly.GABA/peak/overlap_reproducibility/overlap.conservative_peak.narrowPeak.gz
Conservative peak (BigBed)gs://neuro-variants/data/processed/roussos_2024/croo/roussos_2024.elderly.GABA/peak/overlap_reproducibility/overlap.conservative_peak.narrowPeak.bb
Conservative peak (hammock)gs://neuro-variants/data/processed/roussos_2024/croo/roussos_2024.elderly.GABA/peak/overlap_reproducibility/overlap.conservative_peak.narrowPeak.hammock.gz
Conservative peak (starch)gs://neuro-variants/data/processed/roussos_2024/croo/roussos_2024.elderly.GABA/peak/overlap_reproducibility/overlap.conservative_peak.narrowPeak.starch
Optimal peakgs://neuro-variants/data/processed/roussos_2024/croo/roussos_2024.elderly.GABA/peak/overlap_reproducibility/overlap.optimal_peak.narrowPeak.gz
Optimal peak (BigBed)gs://neuro-variants/data/processed/roussos_2024/croo/roussos_2024.elderly.GABA/peak/overlap_reproducibility/overlap.optimal_peak.narrowPeak.bb
Optimal peak (hammock)gs://neuro-variants/data/processed/roussos_2024/croo/roussos_2024.elderly.GABA/peak/overlap_reproducibility/overlap.optimal_peak.narrowPeak.hammock.gz
Optimal peak (starch)gs://neuro-variants/data/processed/roussos_2024/croo/roussos_2024.elderly.GABA/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.elderly.GABA/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.elderly.GABA/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.elderly.GABA/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.elderly.GABA/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.elderly.GABA/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.elderly.GABA/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.elderly.GABA/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.elderly.GABA/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.elderly.GABA/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.elderly.GABA/peak/rep1/pseudorep1/roussos_2024.elderly.GABA.pr1.pval0.01.300K.bfilt.narrowPeak.gz
Blacklist-filtered narrowpeak (BigBed)gs://neuro-variants/data/processed/roussos_2024/croo/roussos_2024.elderly.GABA/peak/rep1/pseudorep1/roussos_2024.elderly.GABA.pr1.pval0.01.300K.bfilt.narrowPeak.bb
Blacklist-filtered narrowpeak (hammock)gs://neuro-variants/data/processed/roussos_2024/croo/roussos_2024.elderly.GABA/peak/rep1/pseudorep1/roussos_2024.elderly.GABA.pr1.pval0.01.300K.bfilt.narrowPeak.hammock.gz
Blacklist-filtered narrowpeak (starch)gs://neuro-variants/data/processed/roussos_2024/croo/roussos_2024.elderly.GABA/peak/rep1/pseudorep1/roussos_2024.elderly.GABA.pr1.pval0.01.300K.bfilt.narrowPeak.starch
Raw narrowpeakgs://neuro-variants/data/processed/roussos_2024/croo/roussos_2024.elderly.GABA/peak/rep1/pseudorep1/roussos_2024.elderly.GABA.pr1.pval0.01.300K.narrowPeak.gz
Pseudoreplicate 2
Blacklist-filtered narrowpeakgs://neuro-variants/data/processed/roussos_2024/croo/roussos_2024.elderly.GABA/peak/rep1/pseudorep2/roussos_2024.elderly.GABA.pr2.pval0.01.300K.bfilt.narrowPeak.gz
Blacklist-filtered narrowpeak (BigBed)gs://neuro-variants/data/processed/roussos_2024/croo/roussos_2024.elderly.GABA/peak/rep1/pseudorep2/roussos_2024.elderly.GABA.pr2.pval0.01.300K.bfilt.narrowPeak.bb
Blacklist-filtered narrowpeak (hammock)gs://neuro-variants/data/processed/roussos_2024/croo/roussos_2024.elderly.GABA/peak/rep1/pseudorep2/roussos_2024.elderly.GABA.pr2.pval0.01.300K.bfilt.narrowPeak.hammock.gz
Blacklist-filtered narrowpeak (starch)gs://neuro-variants/data/processed/roussos_2024/croo/roussos_2024.elderly.GABA/peak/rep1/pseudorep2/roussos_2024.elderly.GABA.pr2.pval0.01.300K.bfilt.narrowPeak.starch
Raw narrowpeakgs://neuro-variants/data/processed/roussos_2024/croo/roussos_2024.elderly.GABA/peak/rep1/pseudorep2/roussos_2024.elderly.GABA.pr2.pval0.01.300K.narrowPeak.gz
Blacklist-filtered narrowpeakgs://neuro-variants/data/processed/roussos_2024/croo/roussos_2024.elderly.GABA/peak/rep1/roussos_2024.elderly.GABA.pval0.01.300K.bfilt.narrowPeak.gz
Blacklist-filtered narrowpeak (BigBed)gs://neuro-variants/data/processed/roussos_2024/croo/roussos_2024.elderly.GABA/peak/rep1/roussos_2024.elderly.GABA.pval0.01.300K.bfilt.narrowPeak.bb
Blacklist-filtered narrowpeak (hammock)gs://neuro-variants/data/processed/roussos_2024/croo/roussos_2024.elderly.GABA/peak/rep1/roussos_2024.elderly.GABA.pval0.01.300K.bfilt.narrowPeak.hammock.gz
Blacklist-filtered narrowpeak (starch)gs://neuro-variants/data/processed/roussos_2024/croo/roussos_2024.elderly.GABA/peak/rep1/roussos_2024.elderly.GABA.pval0.01.300K.bfilt.narrowPeak.starch
Raw narrowpeakgs://neuro-variants/data/processed/roussos_2024/croo/roussos_2024.elderly.GABA/peak/rep1/roussos_2024.elderly.GABA.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.elderly.GABA/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.elderly.GABA/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.elderly.GABA/qc/rep1-pseudorep1_vs_2/rep1-pr1_vs_rep1-pr2.idr0.05.log
IDR plotgs://neuro-variants/data/processed/roussos_2024/croo/roussos_2024.elderly.GABA/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.elderly.GABA/qc/rep1/pseudorep1/roussos_2024.elderly.GABA.pr1.pval0.01.300K.bfilt.frip.qc
Pseudoreplicate 2
Fraction of peaks in readsgs://neuro-variants/data/processed/roussos_2024/croo/roussos_2024.elderly.GABA/qc/rep1/pseudorep2/roussos_2024.elderly.GABA.pr2.pval0.01.300K.bfilt.frip.qc
Fraction of peaks in readsgs://neuro-variants/data/processed/roussos_2024/croo/roussos_2024.elderly.GABA/qc/rep1/roussos_2024.elderly.GABA.pval0.01.300K.bfilt.frip.qc
Final HTML reportgs://neuro-variants/data/processed/roussos_2024/croo/roussos_2024.elderly.GABA/qc/qc.html
Final QC JSON filegs://neuro-variants/data/processed/roussos_2024/croo/roussos_2024.elderly.GABA/qc/qc.json
Reproducibility QC for IDR peaksgs://neuro-variants/data/processed/roussos_2024/croo/roussos_2024.elderly.GABA/qc/overlap.reproducibility.qc
Reproducibility QC for overlap peaksgs://neuro-variants/data/processed/roussos_2024/croo/roussos_2024.elderly.GABA/qc/idr.reproducibility.qc
Signal
Replicate 1
MACS2 signal track (fold-enrichment)gs://neuro-variants/data/processed/roussos_2024/croo/roussos_2024.elderly.GABA/signal/rep1/roussos_2024.elderly.GABA.fc.signal.bigwig
MACS2 signal track (p-val)gs://neuro-variants/data/processed/roussos_2024/croo/roussos_2024.elderly.GABA/signal/rep1/roussos_2024.elderly.GABA.pval.signal.bigwig
Task graph
D cluster_rep1 Replicate 1 -5570645246507218935 macs2_signal_track 5008345344070073729 BW FC -5570645246507218935->5008345344070073729 6340695753237970834 BW p-val -5570645246507218935->6340695753237970834 6310149764206622054 call_peak 7467167739509059144 Peak (bfilt) 6310149764206622054->7467167739509059144 7410388938954731272 Peak 6310149764206622054->7410388938954731272 2339393388601519870 reproducibility_overlap 7410388938954731272->2339393388601519870 -8056328910341190564 reproducibility_idr 7410388938954731272->-8056328910341190564 4743116075792013502 TAG-ALIGN 4743116075792013502->-5570645246507218935 4743116075792013502->6310149764206622054 4743116075792013502->2339393388601519870 4743116075792013502->-8056328910341190564 -2159271864382745164 Overlap Peak optimal 2339393388601519870->-2159271864382745164 -7186043560220481614 Overlap reproducibility 2339393388601519870->-7186043560220481614 -5440157272305441057 IDR Peak optimal -8056328910341190564->-5440157272305441057 -4594474870072416592 IDR reproducibility -8056328910341190564->-4594474870072416592