EnglishFrenchSpanish

Ad


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
    OpenFOAM
    OpenFOAM
    OpenFOAM - The Open Source CFD Toolbox.
    OpenFOAM is a generic, programmable
    software tool for Computational Fluid
    Dynamics (CFD). For more information,
    see: - ...
    Download OpenFOAM
  • 2
    PostInstallerF
    PostInstallerF
    PostInstallerF will install all the
    software that Fedora Linux and others
    doesn't include by default, after
    running Fedora for the first time. Its
    easy for...
    Download PostInstallerF
  • 3
    strace
    strace
    The strace project has been moved to
    https://strace.io. strace is a
    diagnostic, debugging and instructional
    userspace tracer for Linux. It is used
    to monitor a...
    Download strace
  • 4
    JasperReports Library
    JasperReports Library
    JasperReports Library is the
    world's most popular open source
    business intelligence and reporting
    engine. It is entirely written in Java
    and it is able to ...
    Download JasperReports Library
  • 5
    Numerical Python
    Numerical Python
    NEWS: NumPy 1.11.2 is the last release
    that will be made on sourceforge. Wheels
    for Windows, Mac, and Linux as well as
    archived source distributions can be fou...
    Download Numerical Python
  • 6
    CMU Sphinx
    CMU Sphinx
    CMUSphinx is a speaker-independent large
    vocabulary continuous speech recognizer
    released under BSD style license. It is
    also a collection of open source tools ...
    Download CMU Sphinx
  • 7
    Old Feren OS Repositories
    Old Feren OS Repositories
    This was the Official Repository for
    Feren OS. To add the latest one, run
    this command: (16.04-based) echo
    "deb ...
    Download Old Feren OS Repositories
  • More »

Linux commands

Ad