openvax/mhctools

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Python interface to running command-line and web-based MHC binding predictors

Is openvax/mhctools beginner-friendly?

In the last 30 days, openvax/mhctools merged 63 of 65 pull requests from outside contributors, and its maintainers usually reply within 1 day. 2 beginner-friendly issues are open now.

Stars: 109
Forks: 27
Open beginner issues: 2
Indexed issues: 109
Avg merge: 4h 39m
Merged PRs (30d): 63

Dominant language: Python
License: Apache-2.0
Last GitHub push: Oct 26, 2026
Latest indexed: Sep 20, 2026
Contributing guide: No contributing guide
Code of conduct: No code of conduct
Beginner labels: No beginner labels indexed

How to contribute to openvax/mhctools

There is no contributing guide, so start from the README and a few recently merged pull requests to see how changes are proposed.
Your contributions will be published under the project's Apache-2.0 license.
Pick one of the 2 open beginner-friendly issues below and comment that you want to work on it before you start.

Beginner friendly Everything

Open All

Issues somebody may already be working on are listed last. List everything by date

Bound GitHub SSH operations during deployment
Open
- Is something wrong?
Difficulty 4/5 3-5 days Newbie friendliness 48/100

openvax/mhctools#657 · Opened Nov 7, 2026

Maintainers usually reply within 1 day
mhctools/__init__.py lists the 200 public names three times, with nothing checking that the lists agree
Open
- Is something wrong?
Difficulty 3/5 1-2 days Newbie friendliness 58/100

openvax/mhctools#656 · Opened Nov 7, 2026

Maintainers usually reply within 1 day
plans/ holds 25 unreferenced task specs; the work behind 23 of them is merged or closed
Open
- Is something wrong?
Difficulty 2/5 1-3 hours Newbie friendliness 74/100

openvax/mhctools#655 · Opened Nov 7, 2026

Maintainers usually reply within 1 day
`mhctools predictors --check runnable` has no probe for DeepImmuno, DeepTAP, TLimmuno2 or MixTCRpred, though each module defines one that only tests call
Open
- Is something wrong?
Difficulty 4/5 3-5 days Newbie friendliness 55/100

openvax/mhctools#654 · Opened Nov 7, 2026

Maintainers usually reply within 1 day
Eight predictor wrappers resolve their checkout with their own rules, so `mhctools ls` and the wrapper can pick different installs (#434 fixed only NetCleave and TLimmuno2)
Open
- Is something wrong?
Difficulty 4/5 3-5 days Newbie friendliness 48/100

openvax/mhctools#653 · Opened Nov 7, 2026

Maintainers usually reply within 1 day
Track LiteRT optional dependency metadata incompatible with Python 3.12
Open
- Is something wrong?
Difficulty 3/5 1-2 days Newbie friendliness 55/100

openvax/mhctools#651 · Opened Nov 5, 2026

Maintainers usually reply within 1 day
Resolve four ambiguous MixTCRpred catalog targets without choosing representative alleles
Open
- Is something wrong?
Difficulty 5/5 Over a week Newbie friendliness 25/100

openvax/mhctools#649 · Opened Nov 5, 2026

Maintainers usually reply within 1 day
Release ownership regression has a brittle 15-second startup deadline
Open
- Is something wrong?
Difficulty 2/5 1-3 hours Newbie friendliness 76/100

openvax/mhctools#647 · Opened Nov 5, 2026

Maintainers usually reply within 1 day
Bound legacy Docker container startup to surface a stalled engine
Open
- Is something wrong?
Difficulty 2/5 1-3 hours Newbie friendliness 83/100

openvax/mhctools#646 · Opened Nov 4, 2026

Maintainers usually reply within 1 day
analyses/ holds 276 MB of generated runs; six of the ten are unreferenced
Open
- Is something wrong?
Difficulty 4/5 3-5 days Newbie friendliness 48/100

openvax/mhctools#632 · Opened Nov 3, 2026

Maintainers usually reply within 1 day
Track pandas 3.1 indexing deprecations in the BigMHC integration
Open
- Is something wrong?
Difficulty 3/5 1-2 days Newbie friendliness 46/100

openvax/mhctools#615 · Opened Oct 23, 2026

Maintainers usually reply within 1 day
Investigate intermittent netMHCcons QEMU crash in macOS full suite
Open
- Is something wrong?
Difficulty 4/5 3-5 days Newbie friendliness 48/100

openvax/mhctools#599 · 2 comments · Opened Oct 19, 2026

Maintainers usually reply within 1 day
Calibrate bond-level cleavage fractions from assay-matched measurements
Open
- Is something wrong?
Difficulty 5/5 Over a week Newbie friendliness 8/100

openvax/mhctools#587 · Opened Oct 15, 2026

Maintainers usually reply within 1 day
Model lymphatic and draining-node extracellular exposure separately
Open
- Is something wrong?
Difficulty 5/5 Over a week Newbie friendliness 18/100

openvax/mhctools#579 · Opened Oct 14, 2026

Maintainers usually reply within 1 day
Native MixMHCpred sequence-alignment reference times out during full local suite
Open
- Is something wrong?
Difficulty 4/5 3-5 days Newbie friendliness 25/100

openvax/mhctools#547 · 4 comments · Opened Oct 9, 2026

Maintainers usually reply within 1 day
Recover released PhageScout classifier preprocessing for faithful new-sequence inference
Open
- Is something wrong?
Difficulty 5/5 Over a week Newbie friendliness 25/100

openvax/mhctools#521 · 1 comment · Opened Oct 6, 2026

Maintainers usually reply within 1 day
Add distinct human ELANE and PRTN3 extended-recognition evidence and independent inflammatory-protease benchmarks
Open
- Is something wrong?
Difficulty 4/5 3-5 days Newbie friendliness 45/100

openvax/mhctools#519 · Opened Oct 6, 2026

Maintainers usually reply within 1 day
Add human plasma kallikrein KLKB1 recognition evidence separately from tissue KLKs
Open
- Is something wrong?
Difficulty 4/5 3-5 days Newbie friendliness 50/100

openvax/mhctools#518 · Opened Oct 6, 2026

Maintainers usually reply within 1 day
Add assay-scoped human plasmin extended-recognition evidence without treating Lys/Arg as sufficient
Open
- Is something wrong?
Difficulty 4/5 3-5 days Newbie friendliness 45/100

openvax/mhctools#517 · Opened Oct 6, 2026

Maintainers usually reply within 1 day
Add extended human thrombin recognition rules with source-backed cooperative motifs
Open
- Is something wrong?
Difficulty 4/5 3-5 days Newbie friendliness 42/100

openvax/mhctools#516 · Opened Oct 6, 2026

Maintainers usually reply within 1 day
Add pH-scoped human legumain/AEP recognition evidence and observed cleavage sites
Open
- Is something wrong?
Difficulty 4/5 3-5 days Newbie friendliness 45/100

openvax/mhctools#515 · Opened Oct 6, 2026

Maintainers usually reply within 1 day
Add assay-scoped CatL sequence-recognition evidence from PICS/DIPPS and peptide-library measurements
Open
- Is something wrong?
Difficulty 4/5 3-5 days Newbie friendliness 48/100

openvax/mhctools#514 · Opened Oct 6, 2026

Maintainers usually reply within 1 day
Add CleaveNet MMP substrate predictions with native endpoint and assay provenance
Open
- Is something wrong?
Difficulty 5/5 Over a week Newbie friendliness 38/100

openvax/mhctools#476 · 1 comment · Opened Sep 30, 2026

Maintainers usually reply within 1 day
Add assay-scoped cathepsin and AEP coverage for APC cleavage assessments
Open
- Is something wrong?
Difficulty 5/5 Over a week Newbie friendliness 25/100

openvax/mhctools#470 · 2 comments · Opened Sep 29, 2026

Maintainers usually reply within 1 day
Remaining round-3 review nitpicks: test factory dedup, alternate --compartment CLI design
Open
- Is something wrong?
Difficulty 3/5 1-2 days Newbie friendliness 48/100

openvax/mhctools#337 · Opened Sep 14, 2026

Maintainers usually reply within 1 day
Minor: cleavage_models()/get_cleavage_model() do repeated linear work with no caching
Open
- Is something wrong?
Difficulty 4/5 3-5 days Newbie friendliness 45/100

openvax/mhctools#336 · Opened Sep 11, 2026

Maintainers usually reply within 1 day
Curate remaining intracellular peptidases and settle the THOP1 epitope-substrate disagreement
Open
- Is something wrong?
Difficulty 5/5 Over a week Newbie friendliness 25/100

openvax/mhctools#334 · Opened Sep 10, 2026

Maintainers usually reply within 1 day
Resolve conflicting IRAP resistant-precursor sequence in Georgiadou 2010 before benchmarking
Open
- Is something wrong?
Difficulty 4/5 3-5 days Newbie friendliness 48/100

openvax/mhctools#332 · Opened Sep 10, 2026

Maintainers usually reply within 1 day
Validate organ-exposure comparisons without conflating tissue signal, intact peptide and cell-specific delivery
Open
- Is something wrong?
Difficulty 5/5 Over a week Newbie friendliness 35/100

openvax/mhctools#307 · Opened Sep 9, 2026

Maintainers usually reply within 1 day
Assess draining-lymph-node exposure and injection-site compartments as distinct vaccine-relevant endpoints
Open
- Is something wrong?
Difficulty 5/5 Over a week Newbie friendliness 35/100

openvax/mhctools#306 · Opened Sep 9, 2026

Maintainers usually reply within 1 day
Evaluate Wu 2025 descriptor-PBPK nanoparticle biodistribution model with explicit carrier-domain limits
Open
- Is something wrong?
Difficulty 5/5 Over a week Newbie friendliness 35/100

openvax/mhctools#305 · Opened Sep 9, 2026

Maintainers usually reply within 1 day
Assess the DOTATATE PBPK model as a drug-specific organ-distribution reference, not transferable vaccine weights
Open
- Is something wrong?
Difficulty 5/5 Over a week Newbie friendliness 35/100

openvax/mhctools#304 · Opened Sep 9, 2026

Maintainers usually reply within 1 day
Validate the distinction between cellular uptake, intracellular localization and productive antigen presentation
Open
- Is something wrong?
Difficulty 5/5 Over a week Newbie friendliness 38/100

openvax/mhctools#303 · Opened Sep 9, 2026

Maintainers usually reply within 1 day
Curate primary-dendritic-cell uptake evidence and audit applicability of generic CPP predictors
Open
- Is something wrong?
Difficulty 5/5 Over a week Newbie friendliness 35/100

openvax/mhctools#302 · Opened Sep 9, 2026

Maintainers usually reply within 1 day
Evaluate MLCPP 2.0 as a CPP and uptake-efficiency comparator and establish local inference availability
Open
- Is something wrong?
Difficulty 5/5 Over a week Newbie friendliness 45/100

openvax/mhctools#301 · 1 comment · Opened Sep 9, 2026

Maintainers usually reply within 1 day
Evaluate local PerseuCPP classification and uptake-efficiency models with explicit endpoint and licensing gates
Open
- Is something wrong?
Difficulty 5/5 Over a week Newbie friendliness 35/100

openvax/mhctools#300 · 1 comment · Opened Sep 9, 2026

Maintainers usually reply within 1 day
Evaluate POSEIDON quantitative cellular uptake predictions and resolve missing local model artifacts
Open
- Is something wrong?
Difficulty 5/5 Over a week Newbie friendliness 30/100

openvax/mhctools#299 · 1 comment · Opened Sep 9, 2026

Maintainers usually reply within 1 day
Evaluate Glassman 2024 parent-drug PK regression as a limited comparator for documented peptide conjugates
Open
- Is something wrong?
Difficulty 5/5 Over a week Newbie friendliness 35/100

openvax/mhctools#298 · Opened Sep 9, 2026

Maintainers usually reply within 1 day
Audit interspecies scaling and limits of transferring peptide PK predictions from animals to humans
Open
- Is something wrong?
Difficulty 5/5 Over a week Newbie friendliness 35/100

openvax/mhctools#297 · Opened Sep 9, 2026

Maintainers usually reply within 1 day
Separate injection-site absorption and formulation release from systemic peptide elimination
Open
- Is something wrong?
Difficulty 5/5 Over a week Newbie friendliness 35/100

openvax/mhctools#296 · Opened Sep 9, 2026

Maintainers usually reply within 1 day
Assess peptide protein-binding, metabolic and renal-clearance inputs needed to interpret circulation time
Open
- Is something wrong?
Difficulty 5/5 Over a week Newbie friendliness 35/100

openvax/mhctools#295 · Opened Sep 9, 2026

Maintainers usually reply within 1 day
Audit pepADMET half-life endpoints, Tan-model overlap and missing local inference artifacts
Open
- Is something wrong?
Difficulty 5/5 Over a week Newbie friendliness 30/100

openvax/mhctools#294 · 1 comment · Opened Sep 9, 2026

Maintainers usually reply within 1 day
Evaluate Nordell 2026 systemic peptide PK models for clearance, distribution volume and plasma half-life
Open
- Is something wrong?
Difficulty 5/5 Over a week Newbie friendliness 35/100

openvax/mhctools#293 · Opened Sep 9, 2026

Maintainers usually reply within 1 day
Build assay-aware, leakage-audited benchmarks and applicability reports for peptide exposure and uptake models
Open
- Is something wrong?
Difficulty 5/5 Over a week Newbie friendliness 30/100

openvax/mhctools#291 · 3 comments · Opened Sep 9, 2026

Maintainers usually reply within 1 day
Roadmap: peptide circulation, cellular uptake and organ-exposure model evaluation
Open
- Is something wrong?
Difficulty 5/5 Over a week Newbie friendliness 25/100

openvax/mhctools#288 · 1 comment · Opened Sep 9, 2026

Maintainers usually reply within 1 day
Evaluate Tan et al. 2024 whole-peptide half-life models and obtain reproducible local inference artifacts
Open
- Is something wrong?
Difficulty 5/5 Over a week Newbie friendliness 35/100

openvax/mhctools#285 · 1 comment · Opened Sep 9, 2026

Maintainers usually reply within 1 day
Evaluate PEPlife2-associated half-life models and serum-specific validation data before integration
Open
- Is something wrong?
Difficulty 5/5 Over a week Newbie friendliness 30/100

openvax/mhctools#286 · 1 comment · Opened Sep 9, 2026

Maintainers usually reply within 1 day
Evaluate and integrate the Cavaco human-serum half-life model as a reproducible local baseline
Open
- Is something wrong?
Difficulty 5/5 Over a week Newbie friendliness 38/100

openvax/mhctools#284 · 2 comments · Opened Sep 9, 2026

Maintainers usually reply within 1 day
Enable a local PepMSND blood-stability classifier once pretrained inference artifacts are available
Open
- Is something wrong?
Difficulty 5/5 Over a week Newbie friendliness 25/100

openvax/mhctools#282 · 1 comment · Opened Sep 9, 2026

Maintainers usually reply within 1 day
Add a local ProsperousPlus protease-cleavage adapter (legacy runtime and licensing gates)
Open
- Is something wrong?
Difficulty 5/5 Over a week Newbie friendliness 30/100

openvax/mhctools#281 · 1 comment · Opened Sep 9, 2026

Maintainers usually reply within 1 day

openvax/mhctools

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