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New releases and related tools will be announced through the Bowtie mailing list.

Please email Daehwan Kim for questions.

version 0.1.6-beta	4/17/2015
Source code
Linux x86_64 binary
Mac OS X x86_64 binary

The current version of HISAT does not use some of the files in the index, so the actual memory requirement is much lower than the index size. For example, the memory footprint of HISAT for the human genome is about 4.3GB.

• Bowtie2: Ultrafast read alignment
• TopHat2: Spliced read mapper for RNA-Seq
• Cufflinks: Isoform assembly and quantitation for RNA-Seq
• StringTie: Transcript assembly and quantification for RNA-Seq

• Kim D, Langmead B and Salzberg SL. HISAT: a fast spliced aligner with low memory requirements. Nature Methods 2015

  
  

• Daehwan Kim
• Ben Langmead
• Geo Pertea
• Steven Salzberg

• Center for Computational Biology at Johns Hopkins University
• Computer Science Department at Johns Hopkins University