pmhc/ — sources
The reference ligand panel every mhcmatch.Store is built from. Experimental: positive IEDB
MHC-ligand records, harmonised; nothing here is predicted.
| file | rows | what it is |
|---|---|---|
pmhc_full.tsv.gz |
1,482,188 | every positive IEDB epitope–MHC record |
pmhc_shortlist.tsv.gz |
645,102 | the subset supported by ≥2 references |
Schema: epitope, gene, species, mhc_a, mhc_b, mhc_class, mhc_species, reference_id,
n_references.
pmhc_full.tsv.gz composition:
| class | host | rows |
|---|---|---|
| MHCI | HomoSapiens | 1,040,631 |
| MHCII | HomoSapiens | 327,487 |
| MHCI | MusMusculus | 97,601 |
| MHCII | MusMusculus | 16,469 |
The two tiers are a precision/recall choice, not a quality ranking. shortlist drops
single-reference pairs, which removes both the noise and the rare alleles that only one study ever
reported — so it is the better background and the worse coverage. full is the default;
Store.from_pmhc(tier="shortlist") selects the other.
mhcmatch bootstrap --tier all # fetches both, ~16 MB