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HLAreporter

HLAreporter

HLAreporter is a tool for mapping reads to a known reference panel of HLA alleles and then use these reads for de novo assembly. Apparently, the tool has outperformed similar tools such as HLAminer and PHLAT.

Topic

Sequence assembly

Details

  • Operation: Gene-specific assembly
  • Software interface: Command-line user interface
  • Language: -
  • Operating system: Linux; Microsoft Windows
  • License: Not stated
  • Cost: Free
  • Version name: -
  • Credit: Research Grant Council of the Hong Kong Government; SK Yee Medical Foundation
  • Contact: yangwl _at_ hku.hk
  • Collection: -

Publications

Huang Y, Yang J, Ying D, Zhang Y, Shotelersuk V, Hirankarn N, Sham PC, Lau YL, Yang W "HLAreporter: a tool for HLA typing from next generation sequencing data." Genome Med. 2015 Mar 16;7(1):25. 2015. https://doi.org/10.1186/s13073-015-0145-3
PMID: 25908942
PMCID: PMC4407542


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