kemal 924b6bb4b7 cn build-model: compute the per-probe LRR spread in column chunks (peak memory hit the 5 GB cap on 120 GSA arrays)

2026-09-29 12:11:38 +01:00

..

data

Track the packaged CN data files (the data/ ignore rule matched src/simurg/cn/data)

2026-09-29 07:06:47 +01:00

__init__.py

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

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

annotate.py

v2 CN: cn annotate (JSON report, ISCN 2020, cytobands, genes) and the annotation bundle builder

2026-09-29 01:37:56 +01:00

events.py

CN: MF split normalised by per-probe reference BAF noise; genotype-based complete loss (CYTO-041)

2026-09-29 10:56:21 +01:00

gcwave.py

v2 CN/LOH (WIP): cn build-model and cn call

2026-09-29 01:13:51 +01:00

hmm.py

CN: per-probe LRR noise from the batch reference (CYTO-042), --probe-lrr-sd/--no-probe-lrr-sd

2026-09-29 12:00:04 +01:00

model.py

cn build-model: compute the per-probe LRR spread in column chunks (peak memory hit the 5 GB cap on 120 GSA arrays)

2026-09-29 12:11:38 +01:00