EnglishFrenchSpanish

OnWorks favicon

kraken - Online in the Cloud

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

This is the command kraken 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


kraken - assigning taxonomic labels to short DNA sequences

SYNOPSIS


kraken [options] <filename(s)>

OPTIONS


--db NAME
Name for Kraken DB (default: none)

--threads NUM
Number of threads (default: 1)

--fasta-input
Input is FASTA format

--fastq-input
Input is FASTQ format

--gzip-compressed
Input is gzip compressed

--bzip2-compressed
Input is bzip2 compressed

--quick
Quick operation (use first hit or hits)

--min-hits NUM
In quick op., number of hits req'd for classification NOTE: this is ignored if
--quick is not specified

--unclassified-out FILENAME
Print unclassified sequences to filename

--classified-out FILENAME
Print classified sequences to filename

--output FILENAME
Print output to filename (default: stdout); "-" will suppress normal output

--only-classified-output
Print no Kraken output for unclassified sequences

--preload
Loads DB into memory before classification

--paired
The two filenames provided are paired-end reads

--check-names
Ensure each pair of reads have names that agree with each other; ignored if
--paired is not specified

--help Print this message

--version
Print version information

If none of the *-input or *-compressed flags are specified, and the file is a regular
file, automatic format detection is attempted.

Use kraken online using onworks.net services


Free Servers & Workstations

Download Windows & Linux apps

  • 1
    Avogadro
    Avogadro
    Avogadro is an advanced molecular
    editor designed for cross-platform use
    in computational chemistry, molecular
    modeling, bioinformatics, materials
    science and ...
    Download Avogadro
  • 2
    XMLTV
    XMLTV
    XMLTV is a set of programs to process
    TV (tvguide) listings and help manage
    your TV viewing, storing listings in an
    XML-based format. There are utilities to
    do...
    Download XMLTV
  • 3
    strikr
    strikr
    Strikr Free Software project. Artifacts
    released under a 'intent based'
    dual license: AGPLv3 (community) and
    CC-BY-NC-ND 4.0 international
    (commercial)...
    Download strikr
  • 5
    GIFLIB
    GIFLIB
    giflib is a library for reading and
    writing gif images. It is API and ABI
    compatible with libungif which was in
    wide use while the LZW compression
    algorithm was...
    Download GIFLIB
  • 6
    Alt-F
    Alt-F
    Alt-F provides a free and open source
    alternative firmware for the DLINK
    DNS-320/320L/321/323/325/327L and
    DNR-322L. Alt-F has Samba and NFS;
    supports ext2/3/4...
    Download Alt-F
  • More »

Linux commands

Ad