Effective genome size for MACS2 in allele specific Chip-Seq
Hello,
I am using MACS2 to call peaks for allele specific Chip-seq result. However, I am not sure how I should set the effective genome size for it. Since I used SNPs to distinct different allele-mapping, the effective genome size for G1 and G2 should be different, but should I use the effective genome size estimated from the whole genome or I should use a different genome size for different alleles? If so, may I know how I should calculate that? Thank you so much!
• 1,117 views
•
link
written
by
liang795 •
0 answers
No answers yet.
Log in to answer this question.
More posts like this
-
comparing distinct peaks from riboseq profiling results
written by Assa Yeroslaviz
-
Variation in SNP calling
written by ravihansa82
-
macs2 call peak
written by yiren •
-
ChIP-Seq for viral genomes
written by divya.nandakumar •
-
MACS2 gives negative estimated fragment length
written by dcheng1 •
-
How much does effective genome size affect the macs2 output?
written by urjaswita
-
macs2 callpeaks genome
written by sophialovechan •
-
Effective genome size of UCSC hg38
written by izzy.yichao.cai
-
Snps From Genome-2-Genome Alignment
written by Darked89
-
Effective Genome Size In Macs [Hg19]
written by Dataminer
