---
name: "macs2_randsample"
section: "1"
platform: "linux"
package: "macs"
version: "2.2.7.1-6+b1"
release: "Debian 12 (Bookworm)"
platforms: ["linux"]
url: "https://new.carta.tech/macs2_randsample"
---

# macs2\_randsample(1)

Model-based Analysis for ChIP-Sequencing

## NAME

macs2\_randsample - Model-based Analysis for ChIP-Sequencing

## DESCRIPTION

usage: macs2 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. 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. 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 macs2 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