pirl-unc / hitlist
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iskandr 
Add training table design document

498 of 1446 relevant lines covered (34.44%)

0.34 hits per line

Relevant lines Covered
1446 RELEVANT LINES 498 COVERED LINES
0.34 HITS PER LINE
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Recent builds

Builds Branch Commit Type Ran Committer Via Coverage
24209490241 main Add training table design document push iskandr github
34.44
24208584755 main Add quantitative targeted immunopeptidome studies + QqQ instrument type New studies with copies-per-cell quantification: - Stopfer 2021 (34497125): SureQuant-IsoMHC, 1-144K copies/cell - Wu 2019 (31253788): MRM on QqQ, influenza epitopes, 1-5K co... push iskandr github
34.44
24207409106 main Add instrument_type column + Gomez-Zepeda 2024 (#22) * Add instrument_type classification column Maps specific instrument models to categories: - Orbitrap: Q Exactive, Lumos, Fusion, Exploris, Astral, Eclipse, etc. - timsTOF: timsTOF Pro, timsTO... push web-flow github
34.44
24204416728 main Curate per-sample MHC alleles (93% coverage) (#21) * Add per-sample MHC curation tracker 108 studies (224 samples) still need per-sample mhc field: - Tier 1: 7 mono-allelic (link alleles to samples) - Tier 2: 13 with hla_alleles dict (link to sa... push web-flow github
33.98
24195519742 main Issue #19: Fix remaining curation audit findings (#20) * Issue #19: Fix remaining curation audit findings - Marino 2020 (32983136): mhc_class I → I+II, add ip_antibody, clarify note - Fix author: PMID 32157095 "Laumont 2020" → "Chong 2020" - Ter... push web-flow github
33.98
24151577780 main Issue #19: Fix EBV-LCL classification — own category, not cancer Add `ebv_lcl` override type (not cancer, not healthy, forces EBV-LCL flags). Fix `cell_line` override to respect EBV-LCLs (`is_cancer = not is_ebv_lcl`), so mixed studies handle EBV... push iskandr github
33.98
24150502217 main Issue #18: Track MS acquisition metadata per study Add 7 new fields to ms_samples (ip_antibody, acquisition_mode, instrument, fragmentation, labeling, search_engine, fdr) with two-level inheritance: per-sample values override PMID-level defaults.... push iskandr github
33.71
24138385612 main Issue #8: Curate non-classical HLA (154 total PMIDs) (#17) Non-classical MHC studies curated: - HLA-E: 22898188 (TAP-deficient, 556 pep), 26552660 (E*01:01/01:03) - HLA-F: 31717259 (F*01:01/01:03/01:04, 396 pep, sHLA/K562) - HLA-G: 29605689 (G*01... push web-flow github
33.52
24137395215 main Issue #12: Curate human studies 51-100 (144 total PMIDs) (#16) 50 more human studies curated. Key findings: 5 more non-MS exclusions (8 total): - 35486722: MEDi display platform - 33705522: ML + yeast display - 19734234: Synthetic peptide T cell... push web-flow github
33.52
24116909359 main Bump to 0.9.2 — 89 curated PMIDs push iskandr github
33.52
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