DIAMOND 0.8.28

DIAMOND is a sequence aligner for protein and translated DNA searches and functions as a drop-in replacement for the NCBI BLAST software tools. It is suitable for protein-protein search as well as DNA-protein search on short reads and longer sequences including contigs and assemblies, providing a speedup of BLAST ranging up to x20,000.

Accessing the software

To load the module:

$ module load apps/diamond/0.8.28

An example command to include in your job script:

diamond blastx -d ${NRDB} -q reads.fna -o matches.m8

The environment variable NRDB used in this example points to a pre-built DIAMOND database converted from ftp.ncbi.nlm.nih.gov/blast/db/FASTA/nr.gz (24GB) as described on the Diamond website. This is based on data downloaded on 28 November 2016.

For more detail about running DIAMOND, please consult the manual.

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.

At present there are no previous versions of this application on the BlueBEAR service.

Known Problems & Limitations

None.

Other Information

The Support Level for this application is An.

Visit the Diamond Github repository for more information regarding this application.


Last modified: 16 November 2017