# cufflinks

## Summary

+ **Module Name:** cufflinks
+ **Support Level:** Secondary Support
+ **Software Access Level:** Open Access
+ **Home Page:** [http://cole-trapnell-lab.github.io/cufflinks/](http://cole-trapnell-lab.github.io/cufflinks/)

## Software Description

Cufflinks assembles transcripts, estimates their abundances, and tests
for differential expression and regulation in RNA-Seq samples. It
accepts aligned RNA-Seq reads and assembles the alignments into a
parsimonious set of transcripts. Cufflinks then estimates the relative
abundances of these transcripts based on how many reads support each
one.
## General Linux

To load this module for use in a Linux environment, you can run the command:

	module load cufflinks

Depending on where you are working, there may be more than one version of cufflinks available.
To see which modules are available for loading you can run:

	module avail cufflinks