Code

Metrics for CL#68

Code

Draft

Muedi wants to merge 27 commits intoOpenBioML:mainOpenBioML/protein-lm-scaling:mainfrom Muedi:mainMuedi/protein-lm-scaling:mainCopy head branch name to clipboard

+261-151

Commits

Commits on Aug 22, 2023

• rebase

  Muedi

  committed
  94c7d79

  Copy full SHA for 94c7d79

• Add function to get base sequences will remove again, but kept it for own clarity

  Muedi

  committed
  41ae914

  Copy full SHA for 41ae914

• rebase

  Muedi

  committed
  b138c4b

  Copy full SHA for b138c4b

• function to check and set cwd as base folder for eval script

  Muedi

  committed
  29bb2ce

  Copy full SHA for 29bb2ce

• runnable again

  Muedi

  committed
  13f620a

  Copy full SHA for 13f620a

Commits on Sep 7, 2023

• runs with esm pip package, so I removed the code again :) error still thrown for multi mutants

  Muedi

  committed
  917d91b

  Copy full SHA for 917d91b

• Merge branch 'OpenBioML:main' into main

  Muedi

  authored
  4e1e7d1

  Copy full SHA for 4e1e7d1

• wt margins works (label_rows)

  Muedi

  committed
  bece51f

  Copy full SHA for bece51f

Commits on Sep 11, 2023

• eval script, runs for ESM baseline, PR draft

  Muedi

  committed
  5123fbc

  Copy full SHA for 5123fbc

Commits on Sep 13, 2023

• add __init.py__ in getters folder

  Muedi

  committed
  aad47d2

  Copy full SHA for aad47d2

• add AUTOREG variable, move train/test split to supervised block

  Muedi

  committed
  207cfef

  Copy full SHA for 207cfef

• APT zero-shot eval

  Muedi

  committed
  ac0b743

  Copy full SHA for ac0b743

• small changes for vars

  Muedi

  committed
  2240890

  Copy full SHA for 2240890

Commits on Sep 15, 2023

• add cuda yaml and info on readme, Issue (OpenBioML#53)

  Muedi

  committed
  d3ba1a1

  Copy full SHA for d3ba1a1

Commits on Sep 26, 2023

• break up eval script into multiple smaller ones

  Muedi

  committed
  194b121

  Copy full SHA for 194b121

• added esm and APT zero shot as to the comments in PR.

  Muedi

  committed
  fb83e81

  Copy full SHA for fb83e81

• removed old eval script, added changes for Issues (OpenBioML#4) and (OpenBioML#53)

  Muedi

  committed
  7f878c8

  Copy full SHA for 7f878c8

Commits on Oct 12, 2023

• Merge branch 'OpenBioML:main' into main

  Muedi

  authored
  0d5a24d

  Copy full SHA for 0d5a24d

• combine folders in eval (OpenBioML#60)

  Muedi

  committed
  3ca4460

  Copy full SHA for 3ca4460

• update yml and gitignore

  Muedi

  committed
  57f89f5

  Copy full SHA for 57f89f5

• add rope config args to toy_hf

  Muedi

  committed
  db4e96d

  Copy full SHA for db4e96d

Commits on Jan 30, 2024

• Merge branch 'OpenBioML:main' into main

  Muedi

  authored
  05af87e

  Copy full SHA for 05af87e

• Merge branch 'main' of github.com:Muedi/protein-lm-scaling

  Muedi

  committed
  1a82f12

  Copy full SHA for 1a82f12

Commits on Jan 31, 2024

• script for sequence complexity metrics

  Muedi

  committed
  48992a4

  Copy full SHA for 48992a4

Commits on Feb 19, 2024

• scripts to read a fasta and compute entropy and KLD

  Muedi

  committed
  dc96ab3

  Copy full SHA for dc96ab3

• added amelies intrinsic dim stuff, need to add fasta support

  Muedi

  committed
  34b6965

  Copy full SHA for 34b6965

Commits on Mar 25, 2024

• typo in script name :D

  Muedi

  committed
  ddfc596

  Copy full SHA for ddfc596