EnglishFrenchSpanish

Ad


OnWorks favicon

gap5 - Online in the Cloud

Run gap5 in OnWorks free hosting provider over Ubuntu Online, Fedora Online, Windows online emulator or MAC OS online emulator

This is the command gap5 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


gap5 - Genome Assembly Program (part of staden package)

SYNOPSIS


gap5 [-ro] [-maxseq <number>] [-maxdb <number>] [-skip_notes] [DATABASE_NAME.V]

DESCRIPTION


Gap5 is a Genome Assembly Program. The program contains all the tools that would be
expected from an assembly program plus many unique features and a very easily used
interface. The original version was described in Bonfield,J.K., Smith,K.F. and Staden,R. A
new DNA sequence assembly program. Nucleic Acids Res. 24, 4992-4999 (1995)

Gap5 is very big and powerful. Everybody employs a subset of options and has their
favourite way of accessing and using them. Although there is a lot of it, users are
encouraged to go through the whole of the documentation once, just to discover what is
possible, and the way that best suits their own work. At the very least, the whole of this
introductory chapter should be read, as in the long run, it will save time.

OPTIONS


-ro Read-only

-maxseq N
Initial maximum total consensus length

-maxdb N
Initial maximum number of contigs + readings

-(no_)check
(Do not) run Check Database upon DB open

-(no_)exec_notes
(Do not) execute OPEN/CLOS notes upon database open

-(no_)rawdata_note
(Do not) use RAWD note instead of RAWDATA env. variable

-(no_)csel
(Do not) start up the contig selector upon db open

-display
X Display to use

-bitsize N
Specifies the aux file bitsize for new databases (32/64)

-sync Use synchronous mode for display server (debugging)

-- End of argument list

Use gap5 online using onworks.net services


Free Servers & Workstations

Download Windows & Linux apps

  • 1
    Boost C++ Libraries
    Boost C++ Libraries
    Boost provides free portable
    peer-reviewed C++ libraries. The
    emphasis is on portable libraries which
    work well with the C++ Standard Library.
    See http://www.bo...
    Download Boost C++ Libraries
  • 2
    VirtualGL
    VirtualGL
    VirtualGL redirects 3D commands from a
    Unix/Linux OpenGL application onto a
    server-side GPU and converts the
    rendered 3D images into a video stream
    with which ...
    Download VirtualGL
  • 3
    libusb
    libusb
    Library to enable user space
    application programs to communicate with
    USB devices. Audience: Developers, End
    Users/Desktop. Programming Language: C.
    Categories...
    Download libusb
  • 4
    SWIG
    SWIG
    SWIG is a software development tool
    that connects programs written in C and
    C++ with a variety of high-level
    programming languages. SWIG is used with
    different...
    Download SWIG
  • 5
    WooCommerce Nextjs React Theme
    WooCommerce Nextjs React Theme
    React WooCommerce theme, built with
    Next JS, Webpack, Babel, Node, and
    Express, using GraphQL and Apollo
    Client. WooCommerce Store in React(
    contains: Products...
    Download WooCommerce Nextjs React Theme
  • 6
    archlabs_repo
    archlabs_repo
    Package repo for ArchLabs This is an
    application that can also be fetched
    from
    https://sourceforge.net/projects/archlabs-repo/.
    It has been hosted in OnWorks in...
    Download archlabs_repo
  • More »

Linux commands

Ad