EnglishFrenchSpanish

Ad


OnWorks favicon

diffseqe - Online in the Cloud

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

This is the command diffseqe 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


diffseq - Compare and report features of two similar sequences

SYNOPSIS


diffseq -asequence sequence -bsequence sequence -wordsize integer
[-globaldifferences boolean] -outfile report -aoutfeat featout -boutfeat featout

diffseq -help

DESCRIPTION


diffseq is a command line program from EMBOSS (“the European Molecular Biology Open
Software Suite”). It is part of the "Alignment:Differences" command group(s).

OPTIONS


Input section
-asequence sequence

-bsequence sequence

Required section
-wordsize integer
The similar regions between the two sequences are found by creating a hash table of
'wordsize'd subsequences. 10 is a reasonable default. Making this value larger (20?)
may speed up the program slightly, but will mean that any two differences within
'wordsize' of each other will be grouped as a single region of difference. This value
may be made smaller (4?) to improve the resolution of nearby differences, but the
program will go much slower. Default value: 10

Additional section
-globaldifferences boolean
Normally this program will find regions of identity that are the length of the
specified word-size or greater and will then report the regions of difference between
these matching regions. This works well and is what most people want if they are
working with long overlapping nucleic acid sequences. You are usually not interested
in the non-overlapping ends of these sequences. If you have protein sequences or short
RNA sequences however, you will be interested in differences at the very ends . It
this option is set to be true then the differences at the ends will also be reported.
Default value: N

Output section
-outfile report

-aoutfeat featout
File for output of first sequence's features Default value: $(asequence.name).diffgff

-boutfeat featout
File for output of second sequence's features Default value: $(bsequence.name).diffgff

Use diffseqe online using onworks.net services


Free Servers & Workstations

Download Windows & Linux apps

  • 1
    AstrOrzPlayer
    AstrOrzPlayer
    AstrOrz Player is a free media player
    software, part based on WMP and VLC. The
    player is in a minimalist style, with
    more than ten theme colors, and can also
    b...
    Download AstrOrzPlayer
  • 2
    movistartv
    movistartv
    Kodi Movistar+ TV es un ADDON para XBMC/
    Kodi que permite disponer de un
    decodificador de los servicios IPTV de
    Movistar integrado en uno de los
    mediacenters ma...
    Download movistartv
  • 3
    Code::Blocks
    Code::Blocks
    Code::Blocks is a free, open-source,
    cross-platform C, C++ and Fortran IDE
    built to meet the most demanding needs
    of its users. It is designed to be very
    extens...
    Download Code::Blocks
  • 4
    Amidst
    Amidst
    Amidst or Advanced Minecraft Interface
    and Data/Structure Tracking is a tool to
    display an overview of a Minecraft
    world, without actually creating it. It
    can ...
    Download Amidst
  • 5
    MSYS2
    MSYS2
    MSYS2 is a collection of tools and
    libraries providing you with an
    easy-to-use environment for building,
    installing and running native Windows
    software. It con...
    Download MSYS2
  • 6
    libjpeg-turbo
    libjpeg-turbo
    libjpeg-turbo is a JPEG image codec
    that uses SIMD instructions (MMX, SSE2,
    NEON, AltiVec) to accelerate baseline
    JPEG compression and decompression on
    x86, x8...
    Download libjpeg-turbo
  • More »

Linux commands

  • 1
    abi-tracker
    abi-tracker
    abi-tracker - visualize ABI changes
    timeline of a C/C++ software library.
    DESCRIPTION: NAME: ABI Tracker
    (abi-tracker) Visualize ABI changes
    timeline of a C/C+...
    Run abi-tracker
  • 2
    abicheck
    abicheck
    abicheck - check application binaries
    for calls to private or evolving symbols
    in libraries and for static linking of
    some system libraries. ...
    Run abicheck
  • 3
    couriermlm
    couriermlm
    couriermlm - The Courier mailing list
    manager ...
    Run couriermlm
  • 4
    couriertcpd
    couriertcpd
    couriertcpd - the Courier mail server
    TCP server daemon ...
    Run couriertcpd
  • 5
    gbklatex
    gbklatex
    bg5latex - Use LaTeX directly on a Big5
    encodedtex file bg5pdflatex - Use
    pdfLaTeX directly on a Big5 encodedtex
    file bg5+latex - Use LaTeX directly on a
    Big5+...
    Run gbklatex
  • 6
    gbkpdflatex
    gbkpdflatex
    bg5latex - Use LaTeX directly on a Big5
    encodedtex file bg5pdflatex - Use
    pdfLaTeX directly on a Big5 encodedtex
    file bg5+latex - Use LaTeX directly on a
    Big5+...
    Run gbkpdflatex
  • More »

Ad