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Short description:
Please summarise the application in a few sentences. Avoid links here. Program for haplotype reconstruction from paired-end reads.
Software version:
Biological application domain(s) (Phylogenetics, Genomics, ...):
Principal bioinformatics method(s) (Assembly, Mapping, ...):
Haplotype reconstruction
Technology (Sanger, Illumina, 454, SOLiD, Ion Torrent, ...):
Illumina,
Interface (Command line, Web UI, Desktop GUI, SOAP WS, HTTP WS, API, QL):
Resource type (Command-line tool, Web application, Desktop application, Script, Suite, Workbench, Database portal, Workflow, Plug-in, Library, Web API, Web service, SPARQL endpoint):
Sanger Institute,
HI (Haplotype Improver) is a tool written in Java to improve the haplotype reconstructions of existing phasing tools. The time complexity of this algorithm is linear to the number of reads and the space complexity is linear to the sum of heterozygotes of all individuals. Comparing with the time consuming sampling process of phasing tools, the time overhead added by HI is a small proportion affordable for the phasing tool users. At the same time, if the user can run phasing tools, her/his RAM can afford HI.
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