.git
.gitignore
__pycache__/
*.py[cod]
.pytest_cache/
.mypy_cache/
.ruff_cache/

# Analysis inputs and results are mounted at runtime, never baked into the image.
data/raw_atac/
data/raw_rna/
output/
fastq/
*.bam
*.bai
*.cram
*.fastq
*.fastq.gz
*.fq
*.fq.gz
*.h5ad
*.rds

# Local container products can be very large.
container-dist/
*.sif
*.simg
*.tar
*.tar.gz
containers/binds.conf
