SESTRAV good first issues (Python)

Emit a provenance sidecar for the Section 3.3 decoy-vs-binding-matrix figures 2 months ago

help wanted

3

Dry-lab computational pipeline for prioritizing viral CD8+ T-cell epitopes by predicted immunogenicity across nine viral pathogens (CMV, EBV, HBV, HCV, HPV, HIV-1, IAV, DENV, SARS-CoV-2). RF/XGBoost production track; GINEConv+ESM-2 GNN research track. OpenSSF Passing.

Python

#bioinformatics#computational-biology#computational-immunology#epitope-prediction#epstein-barr-virus#graph-neural-networks#hiv#human-papillomavirus#immunogenicity#influenza#machine-learning#pytorch#pytorch-geometric#sars-cov-2#snakemake#structural-immunology#vaccinology

Add a machine-readable historical marker to the v3-era model card tables 2 months ago

documentation help wanted

Gavin-Borges/SESTRAV

3

Dry-lab computational pipeline for prioritizing viral CD8+ T-cell epitopes by predicted immunogenicity across nine viral pathogens (CMV, EBV, HBV, HCV, HPV, HIV-1, IAV, DENV, SARS-CoV-2). RF/XGBoost production track; GINEConv+ESM-2 GNN research track. OpenSSF Passing.

Python

#bioinformatics#computational-biology#computational-immunology#epitope-prediction#epstein-barr-virus#graph-neural-networks#hiv#human-papillomavirus#immunogenicity#influenza#machine-learning#pytorch#pytorch-geometric#sars-cov-2#snakemake#structural-immunology#vaccinology

State that the Docker Compose stack is unaffected by the root Dockerfile packaging defect 2 months ago

documentation good first issue

Gavin-Borges/SESTRAV

3

Dry-lab computational pipeline for prioritizing viral CD8+ T-cell epitopes by predicted immunogenicity across nine viral pathogens (CMV, EBV, HBV, HCV, HPV, HIV-1, IAV, DENV, SARS-CoV-2). RF/XGBoost production track; GINEConv+ESM-2 GNN research track. OpenSSF Passing.

Python

#bioinformatics#computational-biology#computational-immunology#epitope-prediction#epstein-barr-virus#graph-neural-networks#hiv#human-papillomavirus#immunogenicity#influenza#machine-learning#pytorch#pytorch-geometric#sars-cov-2#snakemake#structural-immunology#vaccinology

Flag pVACtools as a different problem domain in the README comparison table 2 months ago

documentation good first issue

Gavin-Borges/SESTRAV

3

Dry-lab computational pipeline for prioritizing viral CD8+ T-cell epitopes by predicted immunogenicity across nine viral pathogens (CMV, EBV, HBV, HCV, HPV, HIV-1, IAV, DENV, SARS-CoV-2). RF/XGBoost production track; GINEConv+ESM-2 GNN research track. OpenSSF Passing.

Python

#bioinformatics#computational-biology#computational-immunology#epitope-prediction#epstein-barr-virus#graph-neural-networks#hiv#human-papillomavirus#immunogenicity#influenza#machine-learning#pytorch#pytorch-geometric#sars-cov-2#snakemake#structural-immunology#vaccinology

Add HBV/HCV proteome ingestion path 4 months ago

help wanted

Gavin-Borges/SESTRAV

3

Dry-lab computational pipeline for prioritizing viral CD8+ T-cell epitopes by predicted immunogenicity across nine viral pathogens (CMV, EBV, HBV, HCV, HPV, HIV-1, IAV, DENV, SARS-CoV-2). RF/XGBoost production track; GINEConv+ESM-2 GNN research track. OpenSSF Passing.

Python

#bioinformatics#computational-biology#computational-immunology#epitope-prediction#epstein-barr-virus#graph-neural-networks#hiv#human-papillomavirus#immunogenicity#influenza#machine-learning#pytorch#pytorch-geometric#sars-cov-2#snakemake#structural-immunology#vaccinology

Increase unit-test coverage of src/external_predictors.py (~73%) 4 months ago

good first issue

Gavin-Borges/SESTRAV

3

Dry-lab computational pipeline for prioritizing viral CD8+ T-cell epitopes by predicted immunogenicity across nine viral pathogens (CMV, EBV, HBV, HCV, HPV, HIV-1, IAV, DENV, SARS-CoV-2). RF/XGBoost production track; GINEConv+ESM-2 GNN research track. OpenSSF Passing.

Python

#bioinformatics#computational-biology#computational-immunology#epitope-prediction#epstein-barr-virus#graph-neural-networks#hiv#human-papillomavirus#immunogenicity#influenza#machine-learning#pytorch#pytorch-geometric#sars-cov-2#snakemake#structural-immunology#vaccinology

Stage 4 prototype fallback raises IndexError when no binding/presentation score column is present 4 months ago

bug good first issue

Gavin-Borges/SESTRAV

3

Dry-lab computational pipeline for prioritizing viral CD8+ T-cell epitopes by predicted immunogenicity across nine viral pathogens (CMV, EBV, HBV, HCV, HPV, HIV-1, IAV, DENV, SARS-CoV-2). RF/XGBoost production track; GINEConv+ESM-2 GNN research track. OpenSSF Passing.

Python

#bioinformatics#computational-biology#computational-immunology#epitope-prediction#epstein-barr-virus#graph-neural-networks#hiv#human-papillomavirus#immunogenicity#influenza#machine-learning#pytorch#pytorch-geometric#sars-cov-2#snakemake#structural-immunology#vaccinology

Gavin-Borges/SESTRAV

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