xenial (1) macs2_randsample.1.gz

NAME

       macs2_randsample - Model-based Analysis for ChIP-Sequencing

DESCRIPTION

       usage: macs2 randsample [-h] -t TFILE [TFILE ...] (-p PERCENTAGE | -n NUMBER)

       [--seed SEED] [-o OUTPUTFILE] [--outdir OUTDIR]
              [-s TSIZE] [-f {AUTO,BAM,SAM,BED,ELAND,ELANDMULTI,ELANDEXPORT,BOWTIE}] [--verbose VERBOSE]

   optional arguments:
       -h, --help
              show this help message and exit

       -t TFILE [TFILE ...], --tfile TFILE [TFILE ...]
              ChIP-seq alignment file. If multiple files are given as '-t A B C', then they will all be read and
              combined. Note that pair-end data is not supposed to work with this command. REQUIRED.

       -p PERCENTAGE, --percentage PERCENTAGE
              Percentage of tags you want to keep. Input 80.0 for 80%. This option can't be  used  at  the  same
              time with -n/--num. REQUIRED

       -n NUMBER, --number NUMBER
              Number of tags you want to keep. Input 8000000 or 8e+6 for 8 million. This option can't be used at
              the same time with -p/--percent. Note that the number of tags in  output  is  approximate  as  the
              number specified here.  REQUIRED

       --seed SEED
              Set  the  random  seed  while  down  sampling  data. Must be a non-negative integer in order to be
              effective.  DEFAULT: not set

       -o OUTPUTFILE, --ofile OUTPUTFILE
              Output BED file name. If not specified, will write to standard output. DEFAULT: stdout

       --outdir OUTDIR
              If specified all output files will be written to that  directory.  Default:  the  current  working
              directory

       -s TSIZE, --tsize TSIZE
              Tag size. This will override the auto detected tag size. DEFAULT: Not set

       -f                    {AUTO,BAM,SAM,BED,ELAND,ELANDMULTI,ELANDEXPORT,BOWTIE},                    --format
       {AUTO,BAM,SAM,BED,ELAND,ELANDMULTI,ELANDEXPORT,BOWTIE}
              Format of tag file, "AUTO", "BED" or "ELAND" or "ELANDMULTI" or "ELANDEXPORT" or "SAM" or "BAM" or
              "BOWTIE".  The  default  AUTO option will macs2 randsample decide which format the file is. Please
              check the definition in README file  if  you  choose  ELAND/ELANDMULTI/ELANDEXPORT/SAM/BAM/BOWTIE.
              DEFAULT: "AUTO"

       --verbose VERBOSE
              Set  verbose  level.  0:  only  show critical message, 1: show additional warning message, 2: show
              process information, 3: show debug messages. If you want to know where are  the  duplicate  reads,
              use 3. DEFAULT:2