A majority of the installed software on Colossus is documented here. Run module avail to get the definitive list of installed packages and versions.
It is possible to request installation or upgrade of software. Please note that our resources for installing and maintaining software are limited, so we will have to prioritize what to install. In order to request software installation or upgrade, you must fill out this form.
Programming/Computing languages
Visualisation
General software
Container platforms
Area-specific software
Biology/bioinformatics
- BLAST+
- Bowtie2
- ConnectomeWorkbench
- deepTools
- FreeSurfer
- FSL
- GATK
- hisat2
- HMMER
- MAFFT
- Nextflow
- PennCNV
- Picard-tools
- PLINK
- RAxML
- snakemake
- STAR
- Subread
- VSEARCH
Statistics
Transcription / LMMs
- Whisper
- Transformers (Huggingface)
Libraries, incl MPIs
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