SOAPdenovo

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Description

SOAPdenovo is a novel short-read assembly method that can build a de novo draft assembly for the human-sized genomes. The program is specially designed to assemble Illumina GA short reads. It creates new opportunities for building reference sequences and carrying out accurate analyses of unexplored genomes in a cost effective way.

Availability

  • version 2.0 r240 (module SOAPdenovo2) -- SOAPdenovo2 together with other related tools (namely SOAPec, GapCloser, Data prepare and Error Correction modules)
  • version 1.05 (module SOAPdenovo) -- SOAPdenovo version 1.05

Usage

Load the module (module add SOAPdenovo2) and use the available tools (Corrector_AR, Corrector_HA, ErrorCorrection, finalFusion, GapCloser, KmerFreq_AR, KmerFreq_HA, SOAPdenovo-127mer, SOAPdenovo-63mer) in accordance with the program documentation.

Documentation

Documentation is available on official website. Help and instruction manual is also a part of the package. https://github.com/aquaskyline/SOAPdenovo2

Licence

GNU GPL 3

Supported platforms

Linux x86_64

Program administrator

meta@cesnet.cz

Homepage

URL: http://soap.genomics.org.cn/