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4
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1
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299
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5 follow
1
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Can be merged biological replicates?
chip-seq macs2 peak-calling atac-seq rna-seq written 8 weeks ago by star • 60 • updated 23 days ago by ZZzzzzhong • 110
0
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0
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116
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0
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When using MACS2 with -f BAM, it is possible to have a shift other than 0?
macs macs2 written 7 weeks ago by Lucy • 0 • updated 24 days ago by Biostar ♦♦ 20
1
vote
1
answer
133
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1
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Determine peak summits after IDR analysis
peak summits macs2 idr written 5 weeks ago by Lucy • 0 • updated 5 weeks ago by Alex Reynolds ♦ 26k
0
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0
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158
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0
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Macs2: predicted fragment length less than 2*tag length
macs2 chip-seq tagsize written 6 weeks ago by langya • 20
3
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1
answer
177
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1
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MACS2: Albeit outdir definition, my output goes to folder of input
macs2 chip-seq written 6 weeks ago by gdeniz • 0
0
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1
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166
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1
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shift direction in ATAC/DNase data?
macs2 chip-seq atac-seq dnase-seq written 7 weeks ago by star • 60
0
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1
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237
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1
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Inconsistency between number of reads in Samtools flagstat and Macs2 total tags.
macs2 peak calling atac chip-seq written 9 weeks ago by ahmadammarmalik • 0 • updated 9 weeks ago by genomax ♦ 57k
0
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0
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137
views
0
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Meaning of mfold upper limit?
mfold macs2 chip-seq written 10 weeks ago by mbk0asis • 380
1
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0
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146
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0
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What parameter values to change in peak calling with MACS2 when calculating IDR afterwards?
macs2 idr chip-seq written 11 weeks ago by salamandra • 170
0
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1
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545
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1
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file "_peaks.bed" on macs2
macs2 chip-seq peakcall written 16 months ago by Brice222 • 30 • updated 3 months ago by Biostar ♦♦ 20
6
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2
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430
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5 follow
2
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How can I look at find 'open chromatin' from ATAC-seq data using MACS2
macs2 atac-seq written 3 months ago by a.rex • 150 • updated 3 months ago by ATpoint ♦ 8.0k
1
vote
1
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187
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1
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how i get get same length of peaks by macs2
macs2 chip-seq written 3 months ago by mikysyc2016 • 20
3
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2
answers
1.3k
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7 follow
2
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ATAC-seq: differential peaks using macs2 bdgdiff yields strange results
macs2 atac-seq written 8 months ago by stephenz • 10 • updated 3 months ago by Alternative • 220
2
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4
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1.9k
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4
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Empty output from MACS2 when using control
peak calling macs2 chip-seq written 2.7 years ago by lm687 • 50 • updated 3 months ago by oriolebaltimore • 60
0
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1
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244
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1
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Doubt using HOMER annotatePeaks.pl
homer macs2 chip-seq written 4 months ago by nanoide • 10 • updated 4 months ago by b.nota ♦ 5.0k
8
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2
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526
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8 follow
2
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Peak calling using macs2?
macs2 chip-seq peaks peak-calling written 4 months ago by star • 60 • updated 4 months ago by RamRS ♦ 18k
1
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3
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1.8k
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5 follow
3
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MACS2 with multiple replicates
macs2 chip-seq written 18 months ago by ariel.balter • 130 • updated 4 months ago by Hmd • 10
0
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3
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462
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3
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MACS2 output (fold enrichment)
macs chipseq macs2 written 4 months ago by samantha_jeschonek • 50 • updated 4 months ago by roma • 110
1
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0
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198
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0
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nomarlizing sequencing depth when use macs2 bdgbroadpeaks
macs2 chip-seq sequencing written 5 months ago by langya • 20
0
votes
1
answer
365
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1
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Peak calling with MACS for paired end DNase-seq data
macs2 paired-end dna-seq bwa written 5 months ago by Bioinformatist Newbie • 230 • updated 5 months ago by igor ♦ 6.8k
1
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1
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413
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1
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Problem with MACS2 results
ngs macs2 written 5 months ago by eilluecaf • 0 • updated 5 months ago by Chris Fields • 1.9k
0
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1
answer
642
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1
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Difference in number of peaks called
macs2 chip-seq peakcalling written 16 months ago by anu014 • 150 • updated 6 months ago by colindaven • 800
0
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1
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323
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1
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Diffbind error : sequences from an unspecified genome; no seqlengths
macs diffbind macs2 chip-seq granges written 7 months ago by erwan.scaon • 570 • updated 6 months ago by Rory Stark • 460
1
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0
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235
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0
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MACS2 Total Reads Within a Peak?
homer macs2 chip-seq written 6 months ago by takamichael • 0
0
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0
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493
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0
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ChIP-seq differential binding with multiple replicates using MACS2 bdgdiff.
bdgdiff macs2 chip-seq written 7 months ago by shawn.w.foley • 110
3
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1
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718
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1
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If we use MACS2 do we need to remove duplicate sequences with samtools rmdup ?
duplicates macs2 chip-seq written 7 months ago by salamandra • 170 • updated 7 months ago by Biostar ♦♦ 20
0
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1
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364
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1
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using MACS2 with hg38
macs2 hg38 written 7 months ago by varsha619 • 70 • updated 7 months ago by igor ♦ 6.8k
0
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0
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427
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0
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MACS2 MODEL VS NO MODEL FOR CHIRP SEQ
chirp-seq macs2 chip-seq peakcalling written 7 months ago by prathyushakonda • 0
0
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0
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472
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0
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ChIP-seq heatmap: Which MACS2 output file should we give as input into deeptools computeMatrix?
deeptools macs2 chip-seq computematrix rna-seq written 7 months ago by salamandra • 170
0
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0
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290
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0
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MACS2: What is in 4th column of treat_pvalue.bdg/treat_qvalue.bdg files?
macs2 chip-seq written 7 months ago by salamandra • 170
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