HISAT is a fast and sensitive spliced alignment program for mapping RNA-seq reads.

  • License: GPL
  • 27 total downloads
  • Last upload: 7 years and 11 days ago

Installers

conda install

  • osx-64  v0.1.6
To install this package with conda run:
conda install -c bioinfo hisat

Description

https://ccb.jhu.edu/software/hisat/index.shtml

HISAT is a fast and sensitive spliced alignment program for mapping RNA-seq reads. In addition to one global FM index that represents a whole genome, HISAT uses a large set of small FM indexes that collectively cover the whole genome (each index represents a genomic region of ~64,000 bp and ~48,000 indexes are needed to cover the human genome). These small indexes (called local indexes) combined with several alignment strategies enable effective alignment of RNA-seq reads, in particular, reads spanning multiple exons. The memory footprint of HISAT is relatively low (~4.3GB for the human genome). We have developed HISAT based on the Bowtie2 implementation to handle most of the operations on the FM index.


© 2022 Anaconda, Inc. All Rights Reserved. (v2.36.1 5a38adad) Legal | Privacy Policy