kemal d60a1d5180 tests: PGx demo oracle tests — definition sanity (PGX-023), limitations (PGX-009), determinism (PGX-029), JSON/TSV (PGX-028)

2026-09-29 17:15:09 +01:00

..

test_p1_real_files.py

P1: file parsers, sample sheet, discovery, CLI inspect

2026-09-27 16:56:39 +01:00

test_p2_raw_xy.py

P3: normalization fit (1.2.0 and 1.1.2), apply, polar, simurg normalize

2026-09-27 22:51:06 +01:00

test_p3_normalization.py

P3: normalization fit (1.2.0 and 1.1.2), apply, polar, simurg normalize

2026-09-27 22:51:06 +01:00

test_p4_genotype.py

P4 (WIP): GenCall-equivalent calling, BAF/LRR, sex, GTC v5, simurg genotype

2026-09-28 00:07:37 +01:00

test_p5_qc.py

P5a: QC — control metrics, thresholds, status, contamination, relatedness, locus summary

2026-09-28 08:35:10 +01:00

test_p6_vcf.py

P6 complete: optional VCF fields, SNV+indel merging, auxiliary MNV loci, PLINK 2 .pgen

2026-09-28 14:29:42 +01:00

test_pgx_demo.py

tests: PGx demo oracle tests — definition sanity (PGX-023), limitations (PGX-009), determinism (PGX-029), JSON/TSV (PGX-028)

2026-09-29 17:15:09 +01:00