NAME

       mac3_cmbreps - Model-based Analysis for ChIP-Sequencing

DESCRIPTION

       usage: macs3 cmbreps [-h] -i IFILE [IFILE ...] [-m {fisher,max,mean}]

              [--outdir OUTDIR] -o OFILE [--verbose VERBOSE]

   options:
       -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, --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
              Output BEDGraph filename for combined scores.

       --verbose VERBOSE
              Set  verbose  level  of runtime message. 0: only show critical message, 1: show additional warning
              message, 2: show process information, 3: show debug messages.  DEFAULT:2

macs3 cmbreps 3.0.2                                March 2025                                    MAC3_CMBREPS(1)