# Build artefacts
target/
**/target/
*.so
*.rlib
build/
dist/
wheels/
*.egg-info/
.eggs/
.Python

# Python
__pycache__/
*.py[cod]
*$py.class
.venv/
venv/
.ipynb_checkpoints/
.pytest_cache/

# Run outputs
isoforge_index/
*_isoforge_index/
*_alignments/
*_isoforge_db/
*_TSS_TES_Clusters/
*.spill.parquet

# Alignment and reference data
*.bam
*.bai
*.sam
*.cram
*.fastq
*.fastq.gz
*.db

# Local
*.bundle
*.bak
nohup.out
.DS_Store
*.swp
*.swo
*~
