Cufflinks v2.2.1

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, taking into account biases in library preparation protocols.

Accessing the software

To load the module:

$ module load Cufflinks/2.2.1-iomkl-2018a
$ module load Cufflinks/2.2.1-foss-2016.10

An example command to include in your job script:

$ cufflinks <cufflinks-options> ./test_data.sam

Accessing Previous Versions

Wherever possible, previous versions of this application will be retained for continuity, especially for research projects that require a consistent version of the software throughout the project. Such versions, however, may be unsupported by IT Services or the applications vendor, and may be withdrawn at short or no notice if they can no longer run on the cluster - for example, essential operating system upgrades may be incompatible with old versions.

Previous versions of this application are recorded below:

Known Problems & Limitations


Other Information

The Support Level for this application is An.

Visit the Cufflinks website for more information regarding this application.

Last modified: 14 August 2018