Kallisto is an RNA-seq quantification program. It quantifies abundances of transcripts from RNA-seq data and uses psedoalignment to determine the compatibility of reads with targets, without needing alignment.

Availability and Restrictions


Kallisto is available on the Owens Clusters. The versions currently available at OSC are:

Version Owens
0.43.1 X*
* Current Default Version

You can use module spider kallisto to view available modules for a given machine. Feel free to contact OSC Help if you need other versions for your work.


Kallisto is available to all OSC users. If you have any questions, please contact OSC Help.

Publisher/Vendor/Repository and License Type

Nicolas Bray et al., Open source


Usage on Owens


To configure your enviorment for use of Salmon, use command module load kallisto. This will load the default version.

Further Reading

Fields of Science: