Showing: differential binding analysis • reset
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4
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1.4k
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csaw - workflow to incorporate input/control samples?
chipseq csaw differential binding analysis written 3.6 years ago by markus.ringner • 10 • updated 3.6 years ago by Aaron Lun • 25k
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2
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2
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Differential binding of ATAC-seq data with no replicates
deseq2 chromatin atac differential binding analysis no replicates written 2.7 years ago by YaGalbi • 20
2
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1
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Multi-factor blocking in DiffBind
diffbind multiple factor design differential binding analysis written 2.2 years ago by jared.andrews07 • 10 • updated 2.2 years ago by Rory Stark • 3.0k
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289
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Is there a way to run Diffbind without the normalization ?
diffbind differential binding analysis written 16 months ago by Thomas • 10 • updated 14 months ago by Rory Stark • 3.0k
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5
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5
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question about DiffBind
diffbind differential binding analysis written 4.3 years ago by February • 0 • updated 4.3 years ago by Rory Stark • 3.0k
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2
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Csaw : filter windows based on matched negative control
csaw differential binding analysis written 4.1 years ago by Pierre-François Roux • 0
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1
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875
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Differential binding using csaw
chipseq differential expression differential gene expression csaw differential binding analysis written 3.7 years ago by Amitha Sampath • 10 • updated 3.7 years ago by Aaron Lun • 25k
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1
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532
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Strategy for choosing window size and read extension length for csaw?
csaw differential binding analysis bin size written 3.6 years ago by Ryan C. Thompson ♦ 7.4k • updated 3.6 years ago by Aaron Lun • 25k
2
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985
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DiffBind dba.analyze() to return all differentially enriched peaks?
diffbind fold enrichment values using diffbind p-value differential binding analysis written 3.5 years ago by alisonhanh.nguyen • 0 • updated 3.5 years ago by Rory Stark • 3.0k
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631
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Chip-seq analysis with input
chip-seq differential binding analysis written 3.4 years ago by damian.kao • 0 • updated 3.4 years ago by Aaron Lun • 25k
3
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1
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796
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1
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Differential Pol2 pausing analysis
chipseq edger csaw differential binding analysis written 2.9 years ago by dalerr • 0 • updated 2.9 years ago by Aaron Lun • 25k
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DiffBind BED output with score
diffbind differential binding analysis written 2.8 years ago by rbronste • 60 • updated 2.8 years ago by Rory Stark • 3.0k
3
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581
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csaw: how does unequal sample size affect filtering filterWindows step
independent filtering statistical power csaw sample size differential binding analysis written 2.3 years ago by zhangly811 • 0 • updated 2.3 years ago by Aaron Lun • 25k
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417
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Receiving error trying to import matrix into DESeq2
deseq deseq2 differential binding analysis written 2.1 years ago by rbronste • 60 • updated 2.1 years ago by Andy91 • 60
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1
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317
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1
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Pre-filtering DESeqDataSetFromMatrix input
deseq2 differential binding analysis written 2.1 years ago by rbronste • 60 • updated 2.1 years ago by James W. MacDonald ♦ 52k
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469
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1
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Altering design following DESeqDataSetFromMatrix and DESeq
deseq2 differential binding analysis written 2.1 years ago by rbronste • 60 • updated 2.1 years ago by Michael Love ♦ 26k
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1
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360
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1
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Cleaning up DiffBind counts in relation to chromosome map
chipseq diffbind differential binding analysis written 2.1 years ago by rbronste • 60 • updated 2.1 years ago by Rory Stark • 3.0k
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454
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1
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Filtering DESeq2 result export along multiple lines
deseq deseq2 differential binding analysis written 2.1 years ago by rbronste • 60 • updated 2.1 years ago by Michael Love ♦ 26k
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6
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6
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Analyzing data without replicates using DiffBind
chipseq diffbind bioconductor differential binding analysis without replicate written 2.1 years ago by Hesh • 0
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474
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1
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DESeq2 design subcategories
deseq deseq2 differential binding analysis written 2.0 years ago by rbronste • 60 • updated 2.0 years ago by Michael Love ♦ 26k
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494
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Opinions on DESeqDataSetFromMatrix rowSums minimum for ChIP and/or ATAC-seq
chipseq deseq2 differential binding analysis atac-seq written 2.0 years ago by rbronste • 60 • updated 2.0 years ago by Aaron Lun • 25k
2
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480
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1
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How to judge DESeq2_block and EdgeR_block result
edger diffbind deseq2 differential binding analysis written 2.0 years ago by ew152 • 0 • updated 24 months ago by Rory Stark • 3.0k
2
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1
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462
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1
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Mapping DESeq2 output back to chromosomal positions
deseq diffbind deseq2 differential binding analysis written 24 months ago by rbronste • 60 • updated 24 months ago by Michael Love ♦ 26k
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353
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Diffbind: How to compare the DBs called with and without a blocking factor
diffbind differential binding analysis blocking written 23 months ago by zhangly811 • 0 • updated 23 months ago by Rory Stark • 3.0k
2
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441
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DiffBind report and MA-plot DB difference
diffbind R differential binding analysis report written 23 months ago by hlsz.laszlo • 0 • updated 23 months ago by Rory Stark • 3.0k
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