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3
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DEseq2 for differential binding analysis ChIP seq
chipseq diffbind deseq2 csaw greylistchip written 11 months ago by Yonatan Amzaleg • 0 • updated 11 months ago by Michael Love ♦ 26k
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DiffBind for ATAC-seq -- bFullLibrarySize parameter
diffbind atac written 9 months ago by paz2005 • 0 • updated 9 months ago by Rory Stark • 3.0k
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Error in estimateDispersionsFit(object, fitType = fitType, quiet = quiet) on using DBA_DESEQ2 with blocking factor.
diffbind written 10 months ago by avantika6194 • 0 • updated 10 months ago by Rory Stark • 3.0k
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DiffBind dba.count error pv$merge(bed): attempt to apply non-function
diffbind written 6 months ago by chadnewton • 0 • updated 3 months ago by Rory Stark • 3.0k
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Can I input peak files from Genrich as input reads in DiffBind?
diffbind genrich written 8 months ago by gsenevirathne • 0 • updated 8 months ago by Rory Stark • 3.0k
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How to get all possible comparisons in DiffBind
diffbind written 11 months ago by bony.dekumar • 0 • updated 11 months ago by James W. MacDonald ♦ 52k
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How to produce the fraction of reads in peaks (FRiP) using DiffBind
diffbind dba.count atac-seq frip dba.show written 8 months ago by Gary • 20 • updated 8 months ago by Rory Stark • 3.0k
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Unable to annotate the differential peaks from DiffBind using ChIPseeker
diffbind chipseeker chip seq peak annotation annotatepeak() written 3 months ago by researcher • 0
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255
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diffBind report Fold scale
diffbind fold change written 11 months ago by joseluis.ruiz • 0 • updated 11 months ago by Rory Stark • 3.0k
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254
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DiffBind peaks input file format
diffbind macs2 written 10 months ago by Anna • 0 • updated 9 months ago by Rory Stark • 3.0k
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244
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how to retrieve binding affinity matrix in diffbind
diffbind dba.count written 9 months ago by hamaor • 0 • updated 9 months ago by Rory Stark • 3.0k
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DiffBind - Counting reads - counts not found
genetics diffbind differential analysis #chip-seq written 9 months ago by ryclb22 • 0 • updated 9 months ago by Rory Stark • 3.0k
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DiffBind's MA plots for ChIP-seq - how to properly interpret normalization from them?
chipseq diffbind R maplot written 6 months ago by melnuesch • 10 • updated 6 months ago by Rory Stark • 3.0k
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DiffBind with highly variable FRiP (Fraction Reads in Peaks)
diffbind written 9 months ago by GFM • 20 • updated 9 months ago by Rory Stark • 3.0k
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196
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Using DiffBind with only a counts table?
diffbind counts atac differential analysis atacseq written 9 months ago by pgontarz • 10 • updated 8 months ago by Rory Stark • 3.0k
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Handing duplicates in DiffBind
diffbind dba.count bremoveduplicates busesummarizeoverlaps written 9 months ago by loretta • 0 • updated 9 months ago by Rory Stark • 3.0k
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Reading peaks from MACS2 with DiffBind
diffbind chip-seq peak calling written 6 months ago by aviv.de-morgan • 0 • updated 6 months ago by Rory Stark • 3.0k
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177
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Diffbind plotting options
diffbind written 9 months ago by Helene • 0 • updated 9 months ago by Rory Stark • 3.0k
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diffbind: use of continuous variables
diffbind deseq2 written 10 months ago by janani.sundaresan • 0
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174
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Diffbind multiple groups
diffbind written 9 months ago by Vince Schulz • 60
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174
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diffbind dba object subset peak regions
diffbind written 4 months ago by Vince Schulz • 60 • updated 3 months ago by Rory Stark • 3.0k
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169
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Diffbind: Using bigwig tracks in place of bam files
diffbind written 8 months ago by ram.n.krishnan • 0 • updated 8 months ago by Gord Brown • 590
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DiffBind dba error
diffbind error R dba written 6 months ago by annika-helverson • 0 • updated 3 months ago by Rory Stark • 3.0k
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DiffBind - Difficulties construction appropriate consensus set
diffbind written 11 months ago by Rob Buurstede • 0
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diffBind: differentially bound sites are highly different between using EDGER and DESEQ2
diffbind written 4 months ago by dewshrs • 0 • updated 4 months ago by Rory Stark • 3.0k
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