Clair3 -- Long-Read Germline Variant Calling

LSHTM PathogenSeq bioinformatics pipelines for pathogen whole-genome sequencing analysis, including TB-Profiler for Mycobacterium tuberculosis lineage and drug-resistance prediction from WGS data, Mal

2 shared topics • 2 shared operations

Docker — container platform for building, running, and distributing reproducible bioinformatics environments. Provides Dockerfile authoring, image management, container execution with volume mounts fo

2 shared topics • 1 shared operation

DVC (Data Version Control) — Git-based version control for data, models, and ML experiments. Provides data versioning with .dvc files, ML pipeline definition via dvc.yaml DAGs, experiment tracking and

2 shared topics • 1 shared operation

GATK VQSR (Variant Quality Score Recalibration) — machine learning-based variant filtering for GATK Best Practices germline pipelines. Trains a Gaussian mixture model on truth/training resource datase

2 shared topics • 1 shared operation

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

2 shared topics • 1 shared operation