Deposit only what the paper reports: the S8 panel and the HPVGEADYFEY control

immrep23_negatives: 832 IMMREP decoy models, and provenance READMEs for the VDJdb arms

cpl: hold 7Q9B as PDB, and correct 868's cognate in the notes

cpl: add the sb27 cognate model, completing 7 of 7 clones

vdjdb_binder_benchmark: fold ranking_confidence and pLDDT into metadata.tsv

Add vdjdb_binder_benchmark: final receptor-task set (real binders vs mock)

vdjdb pos/neg: expand 997->1000 + TCR-annotated meta; drop junk generation_method

cleanup: remove 997 stray root-level negative PDBs (mis-published to root; kept in vdjdb_negatives.tar.gz)

VDJdb-AF positives: 997 TCRmodel2 real-pair models (tar.gz) + meta

VDJdb-AF negatives: 997 TCRmodel2 decoy (mismatched TCRxepitope) models (tar.gz) + meta

Upload folder using huggingface_hub (part 4)

Upload folder using huggingface_hub (part 3)

Upload folder using huggingface_hub (part 2)

Upload folder using huggingface_hub

Add VDJdbMut2023: 1,606 CDR3 point-mutagenesis + relaxation models (Zenodo 8143087, CC-BY-4.0)

Upload cpl/cpl_native_structures.tar.gz with huggingface_hub

Add CPL per-structure AF/TCRmodel confidences + DockQ (cpl_data_stats_new_struct.tsv)

Finalize CPL: all 7 clones as one archive (adds 868, sb27)

Garcia/Yang 2022 B27 peptide-ranking benchmark: 7 crystals (7N2N-S,8CX4) + Table5 EC50/KD ground truth

Add ATLAS alanine-substitution structures (atlas_ala)

README: dataset card — layout, gz/tar.gz+md rule, three-task framing, as_case

add AS (ankylosing spondylitis) B*27:05/:02 allele-case structures + description

add AS (ankylosing spondylitis) B*27:05/:02 allele-case structures + description

cleanup: remove notebooks/figures/analysis-tables from cpl/ (structures + descriptions only)

TCRvdb: 618 modelled TCR-pMHC structures (hash-named TCR_hash) (part 3)

TCRvdb: 618 modelled TCR-pMHC structures (hash-named TCR_hash) (part 2)

TCRvdb: 618 modelled TCR-pMHC structures (hash-named TCR_hash)

CPL strong/weak binder structures + tables + PWMs (tcren2)

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gzip Native2026 structures (.pdb/.cif -> .gz)

gzip Native2022 structures (.pdb/.cif -> .gz)

gzip PolyV2022 structures (.pdb/.cif -> .gz)

gzip Bigot structures (.pdb/.cif -> .gz)

gzip Bobisse structures (.pdb/.cif -> .gz)

Canonical orientation: oriented Native2022 + Native2026; drop Tcr3d2026

Native2022: restore original 243 paper-era set; add Tcr3d2026 (TCR3D)

Native2022: expand to full 395-structure PDB set (paper superset)

add 2022 paper structures

initial commit