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HISAT2-2.1.0 release 6/8/2017
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@infphilo infphilo released this 08 Jun 12:32
· 515 commits to master since this release
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This major version includes the first release of HISAT-genotype, which currently performs HLA typing, DNA fingerprinting analysis, and CYP typing on whole genome sequencing (WGS) reads. We plan to extend the system so that it can analyze not just a few genes, but a whole human genome. Please refer to the HISAT-genotype website for more details.

  • HISAT2 can be directly compiled and executed on Windows system using Visual Studio, thanks to Nigel Dyer.
  • Implemented --new-summary option to output a new style of alignment summary, which is easier to parse for programming purposes.
  • Implemented --summary-file option to output alignment summary to a file in addition to the terminal (e.g. stderr).
  • Fixed discrepancy in HISAT2’s alignment summary.
  • Implemented --no-templatelen-adjustment option to disable automatic template length adjustment for RNA-seq reads.
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