NAME

       mac3_randsample - Model-based Analysis for ChIP-Sequencing

DESCRIPTION

       usage: macs3 randsample [-h] -i IFILE [IFILE ...] (-p PERCENTAGE | -n NUMBER)

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

   options:
       -h, --help
              show this help message and exit

       -i IFILE [IFILE ...], --ifile IFILE [IFILE ...]
              Alignment file. If multiple files are given as '-t A  B  C',  then  they  will  all  be  read  and
              combined. 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. If the setting is 100, it will keep all the reads and convert any format  that
              MACS3 supports into BED or BEDPE (if input is BAMPE) format. 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.  If  you  want  more  reproducible  results,  please  specify  a random seed and record
              it.DEFAULT: not set

       -o OUTPUTFILE, --ofile OUTPUTFILE
              Output BED file name. If not specified, will write to standard output. Note, if the  input  format
              is BAMPE or BEDPE, the output will be in BEDPE format. 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,BAMPE,BEDPE}, --format
       {AUTO,BAM,SAM,BED,ELAND,ELANDMULTI,ELANDEXPORT,BOWTIE,BAMPE,BEDPE}
              Format of tag file, "AUTO", "BED" or "ELAND" or "ELANDMULTI" or "ELANDEXPORT" or "SAM" or "BAM" or
              "BOWTIE" or "BAMPE" or "BEDPE". The default AUTO option will macs3 randsample decide which  format
              the    file    is.    Please    check    the   definition   in   README   file   if   you   choose
              ELAND/ELANDMULTI/ELANDEXPORT/SAM/BAM/BOWTIE or BAMPE/BEDPE. DEFAULT: "AUTO"

       --buffer-size BUFFER_SIZE
              Buffer size for incrementally increasing internal array size to store reads alignment information.
              In most cases, you don't have to change this parameter.  However, if there  are  large  number  of
              chromosomes/contigs/scaffolds in your alignment, it's recommended to specify a smaller buffer size
              in  order to decrease memory usage (but it will take longer time to read alignment files). Minimum
              memory requested for reading an alignment file is about # of CHROMOSOME * BUFFER_SIZE *  8  Bytes.
              DEFAULT: 100000

       --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

macs3 randsample 3.0.1                             April 2024                                 MAC3_RANDSAMPLE(1)