AlignAIR/AlignAIR-pretrained

AlignAIR pretrained models

Official pretrained models for AlignAIR, a neural aligner for immunoglobulin (IG) and T-cell-receptor (TCR) repertoires. This repository is the model registry the AlignAIR CLI reads from: registry.json lists every model + version, and each <id>/<version>.alignair is a self-contained, pickle-free artifact (weights + embedded germline reference + model card).

Use from the CLI (no manual download)

pip install "AlignAIR[cli]"
alignair models list                       # this catalog, fetched live
alignair predict --input reads.fasta --out out.tsv --model alignair-igh-human

--model <id> downloads + hash-verifies + caches the artifact automatically. Pin a version with --model <id>@<version>.

Models

id	version	locus	species	description
alignair-igh-human	1.0.0	IGH	Homo sapiens	Human IGH (heavy chain) aligner — calibrated. GenAIRR OGRDB reference (V198/D33/J7).
alignair-igkl-human	1.0.0	IGK,IGL	Homo sapiens	Human IGK+IGL (light chain) aligner — calibrated. GenAIRR reference (V349/J18).
alignair-tcrb-human	1.0.0	TRB	Homo sapiens	Human TRB (TCR beta) aligner — calibrated. GenAIRR reference (V98/D3/J16).

Each artifact loads without executing any pickle. Reads are anonymous; publishing is maintainer-only.