macs2_cmbreps - Model-based Analysis for ChIP-Sequencing
usage: macs2 cmbreps [-h] -i IFILE [IFILE ...] [-m
{fisher,max,mean}]
- [--outdir OUTDIR] -o OFILE
- -h, --help
- show this help message and exit
- -i IFILE [IFILE ...]
- MACS score in bedGraph for each replicate. Require at least 2 files such
as '-i A B C D'. REQUIRED
- -m {fisher,max,mean},
--method {fisher,max,mean}
- Method to use while combining scores from replicates. 1) fisher: Fisher's
combined probability test. It requires scores in ppois form (-log10
pvalues) from bdgcmp. Other types of scores for this method may cause
cmbreps unexpected errors. 2) max: take the maximum value from replicates
for each genomic position. 3) mean: take the average value. Note, except
for Fisher's method, max or mean will take scores AS IS which means they
won't convert scores from log scale to linear scale or vice versa.
- --outdir
OUTDIR
- If specified all output files will be written to that directory. Default:
the current working directory
- -o OFILE, --ofile
OFILE
- Output BEDGraph filename for combined scores.