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ALLPATHS-LG is a tool for assembling both small and large genomes and it is an improved version of ALLPATHS. The improvements from its predecessor include better handling of repetitive sequences, error correction, accept sequenced data from jumping libraries, efficient memory usage and can handle low coverage regions.


Sequence assembly


  • Operation: Genome assembly
  • Software interface: Command-line user interface
  • Language: C++
  • Operating system: Linux
  • License: Not stated
  • Cost: Free
  • Version name: -
  • Credit: National Institutes of Health; National Human Genome Research Institute; National Institute of Allergy and Infectious Diseases
  • Contact: jaffe _at_
  • Collection: -


Gnerre S, Maccallum I, Przybylski D, Ribeiro FJ, Burton JN, Walker BJ, Sharpe T, Hall G, Shea TP, Sykes S, Berlin AM, Aird D, Costello M, Daza R, Williams L, Nicol R, Gnirke A, Nusbaum C, Lander ES, Jaffe DB "High-quality draft assemblies of mammalian genomes from massively parallel sequence data." Proc Natl Acad Sci U S A. 2011 Jan 25;108(4):1513-8. 10.1073/pnas.1017351108. Epub 2010 Dec 27.
PMID: 21187386
PMCID: PMC3029755

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