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Handle alternate GTF biotype keys - #9
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byee4 merged 1 commit intoOct 5, 2026
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Summary
gene_type/gene_biotypeandtranscript_type/transcript_biotypeattributes when the selected format's preferred key is absent.Verification
python -m pytest -q unit_tests— 12 passed on this branch.This PR is based on #8 so the two changes can be reviewed and merged without
README or changelog conflicts.
Issue status
Related to #6. The tests reproduce and fix a biotype-key mismatch that can turn a coding CDS into
noncoding_exon. A standard GENCODE-style record with the reporter's gffutils inference settings already annotates as CDS; the issue does not provide a BED interval or database sample, so the exact cause of the GENCODE v49 report remains unverified.