Re1nhard-1/deconv-preflight
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Check bulk expression tables against single-cell reference IDs and metadata before deconvolution. Runs locally with Python 3.11+ and no runtime dependencies. From this checkout, in a virtual environment: Expected: PASS: 0 error(s), 0 warning(s). These small fixtures are synthetic. Replace valid/bulk.tsv and valid/metadata.tsv with the broken/ versions to see failures. For a public-data example, see PBMC3k. UTF-8 and gzip (.gz) are supported. Extra metadata columns are ignored. IDs must be unique and match exactly; no automatic mapping, trimming or reordering. See reference export examples. Errors include missing/duplicate IDs, invalid values, mismatched cells, zero-only samples, and samples without positive expression on shared genes. Warnings flag cell order, single donors, incomplete donor coverage and…
Read the full README ↗ · Preview checked 2026-11-11T06:57:49.050Z
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Repository facts
- Owner
- Re1nhard-1
- Primary language
- Python
- Stars
- 194
- Forks
- 7
- Open issues + pull requests
- 0
- License
- MIT
- Archived
- No
- Default branch
- main
- Created
- 2026-09-21T17:29:19.000Z
- Last push
- 2026-09-21T17:33:38.000Z
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