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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.


Sequence assembly


  • 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_
  • Collection: -


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.
PMID: 25908942
PMCID: PMC4407542

Download and documentation

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