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Software Tools

GenPipes

GenPipes is an open-source workflow management system for genomics that provides ready-to-use pipelines and can run on both HPC and cloud environments.

Documentation | GitHub | Publication

Bento

The Bento Platform, developed by the C3G Data Team, helps manage and structure clinical, genomic, and multi-omic datasets. Built on GA4GH standards, it promotes FAIR data practices to enhance the impact and usability of research.

Website | GitHub

CVMFS

C3G, with the Digital Research Alliance of Canada, maintains bioinformatics software modules and genome reference files, available on servers such as Narval, Nibi, Fir, and Rorqual.

Modules | Genomes

ANCHOR

ANCHOR is a 16S rRNA gene amplicon pipeline for the analysis of multiple environmental samples or microbiomes.

GitHub | Publication

FreezeMan

FreezeMan is a freezer and laboratory information management system designed to manage the storage and tracking of biological samples in a laboratory environment.

Github

STRkit

STRkit is a short tandem repeat (STR) genotyping and analysis toolkit for long read sequencing data, especially PacBio HiFi data.

GitHub | Publication