Snakemake

PCAWG (Pan-Cancer Analysis of Whole Genomes) pipelines — standardized bioinformatics workflows from the ICGC-TCGA Pan-Cancer consortium for whole-genome somatic analysis of cancer samples. Includes al

1 shared topic • 3 shared operations

Bioconda — community-driven Conda channel providing 12,000+ bioinformatics packages with pinned dependencies and reproducible environments. Supports recipe creation, environment management, containeri

1 shared topic • 2 shared operations

Pixi — fast, cross-platform package manager for conda and PyPI packages with project-level lockfiles and built-in task runner. Uses pixi.toml manifest for reproducible, multi-platform environments. Id

1 shared topic • 2 shared operations

Poetry is the Python dependency management and packaging tool for creating reproducible projects with pyproject.toml and poetry.lock. Use this skill for dependency resolution, virtual environment isol

1 shared topic • 2 shared operations

Singularity/Apptainer — HPC container runtime for building, running, and managing SIF container images in rootless, multi-tenant cluster environments. Provides OCI-compatible builds from Dockerfiles a

1 shared topic • 2 shared operations