hisat2
Software Description
Info
Module Name
hisat2
Last Updated On
08/29/2023
Support Level
Primary Support
Software Access Level
Open Access
Home Page
Documentation
Software Description
From the HISAT webpage: \"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).\"
General Linux
To load this module for use in a Linux environment, you can run the command:
module load hisat2
Depending on where you are working, there may be more than one version of hisat2 available. To see which modules are available for loading you can run:
module avail hisat2
Agate Modules
Default
2.1.0
Other Modules
2.0.2, 2.1.0
Mangi Modules
Default
2.1.0
Other Modules
2.0.2, 2.1.0
Mesabi Modules
Default
2.1.0
Other Modules
2.0.2, 2.1.0