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Fix/multi pathogen training - #89

Merged

jeffreyHoelzel merged 12 commits into

mainfrom

fix/multi-pathogen-training

Jun 23, 2026

Merged

Fix/multi pathogen training#89
jeffreyHoelzel merged 12 commits into
mainfrom
fix/multi-pathogen-training

Commits on May 22, 2026
Commits on May 26, 2026
- refactor/feat: added threshold-policy selection, added majority vs mean-prob aggregation to prediction/evaluation CLIs
  jeffreyHoelzel
  committed
  1b7e173
Commits on May 27, 2026
- feat: added new label-stratification method which attempts to balance label support with family grouping so each fold gets a better idea of positive vs negative classes
  jeffreyHoelzel
  committed
  e10a466
- refactor/feat: replaced training entry-points with general entry-points, added new convolutional head to enforce peptide-level consistency
  jeffreyHoelzel
  committed
  74b6bb3
Commits on Jun 8, 2026
- refactor: implemented CLI flags for appending sequence length to end of each residue embedding; none, raw (i.e., 1476), or inverse (i.e., 1 / 1476)
  jeffreyHoelzel
  committed
  b494bbb
Commits on Jun 22, 2026
- fix: implemented synchronized uneven-loader training using dummy tensors in uneven data distribution across ranks, implemented small doc changes
  jeffreyHoelzel
  committed
  e535741
- feat: added metadata arguments to embedding generation shell script
  jeffreyHoelzel
  committed
  36427f6
Commits on Jun 23, 2026
- feat: added subset environment variable to training for testing
  jeffreyHoelzel
  committed
  393cc18