EnglishFrenchSpanish

Ad


OnWorks favicon

macs2_randsample - Online in the Cloud

Run macs2_randsample in OnWorks free hosting provider over Ubuntu Online, Fedora Online, Windows online emulator or MAC OS online emulator

This is the command macs2_randsample that can be run in the OnWorks free hosting provider using one of our multiple free online workstations such as Ubuntu Online, Fedora Online, Windows online emulator or MAC OS online emulator

PROGRAM:

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

Use macs2_randsample online using onworks.net services


Free Servers & Workstations

Download Windows & Linux apps

  • 1
    Zephyr Project
    Zephyr Project
    The Zephyr Project is a new generation
    real-time operating system (RTOS) that
    supports multiple hardware
    architectures. It is based on a
    small-footprint kernel...
    Download Zephyr Project
  • 2
    SCons
    SCons
    SCons is a software construction tool
    that is a superior alternative to the
    classic "Make" build tool that
    we all know and love. SCons is
    implemented a...
    Download SCons
  • 3
    PSeInt
    PSeInt
    PSeInt is a pseudo-code interpreter for
    spanish-speaking programming students.
    Its main purpose is to be a tool for
    learning and understanding the basic
    concep...
    Download PSeInt
  • 4
    oStorybook
    oStorybook
    oStorybook l'outil privil�gi� des
    �crivains. ATTENTION : voir sur
    http://ostorybook.tuxfamily.org/v5/
    --en_EN oStorybook the right tool for
    writers. WARNIN...
    Download oStorybook
  • 5
    Asuswrt-Merlin
    Asuswrt-Merlin
    Asuswrt-Merlin is a third party
    firmware for select Asus wireless
    routers. Based on the Asuswrt firmware
    developed by Asus, it brings tweaks, new
    features and ...
    Download Asuswrt-Merlin
  • 6
    Atom
    Atom
    Atom is a text editor that's
    modern, approachable and full-featured.
    It's also easily customizable- you
    can customize it to do anything and be
    able to ...
    Download Atom
  • More »

Linux commands

Ad