Code

Feature/xl#291

Code

Merged

mostafakalhor merged 31 commits intodevelopmentwilhelm-lab/oktoberfest:developmentfrom feature/xlwilhelm-lab/oktoberfest:feature/xlCopy head branch name to clipboardOct 29, 2024

+462,584-654

Commits

Commits on Apr 18, 2024

• annotate_spectral_library_xl Finished annotating

  mostafakalhor

  committed
  42684cc

• annotaton part is done , working on koina part

  mostafakalhor

  committed
  0675a10

Commits on Apr 19, 2024

• ce calibration is working

  mostafakalhor

  committed
  14af44f

• feature generation is done - working on percoltor part

  mostafakalhor

  committed
  434059b

Commits on Apr 21, 2024

• rescoring is working on csm level - all features and numThreads must be checked

  mostafakalhor

  committed
  32978b1

Commits on Apr 23, 2024

• plots are working

  mostafakalhor

  committed
  ae7f423

Commits on Apr 26, 2024

• xl_fdr of uxls fixed

  mostafakalhor

  committed
  4d8e00b

Commits on Apr 27, 2024

• seems scout is working

  mostafakalhor

  committed
  5f64471

Commits on Oct 15, 2024

• paper results is based on this version

  mostafakalhor

  committed
  1c6ec29

• Merge branch 'development' into feature/xl

  mostafakalhor

  committed
  7a3a676

• merging last version of development to xl/feature and fix conflicts

  mostafakalhor

  committed
  cad7c14

Commits on Oct 16, 2024

• fixing conflicts

  mostafakalhor

  committed
  97c00f0

Commits on Oct 17, 2024

• adding func to provide xifdr input

  mostafakalhor

  committed
  bc10316

Commits on Oct 18, 2024

• input xifdr function for xisearch results is working

  mostafakalhor

  committed
  cffb185

Commits on Oct 25, 2024

• generating xifdr input is working for both xisearch and scout

  mostafakalhor

  committed
  8c84612

• fixed unit tests

  mostafakalhor

  committed
  0f4d585

• linting

  mostafakalhor

  committed
  94d07e2

Commits on Oct 27, 2024

• updated deps to new io und fundamentals versions

  mostafakalhor

  committed
  276fc8a

• cleanup runner for xl code

  mostafakalhor

  committed
  be15b9a

• added runner unit test and required data for xl

  mostafakalhor

  committed
  80acbc1

• fixed docstrings

  mostafakalhor

  committed
  389b9cd

• fixed pre-commits error

  mostafakalhor

  committed
  aac8adf

• fixed typeguard issues

  mostafakalhor

  committed
  318cdb1

Commits on Oct 28, 2024

• fixed mypy

  mostafakalhor

  committed
  5f885a5

• reorder using black

  mostafakalhor

  committed
  98e2c40

• fix mocking for predictions

  mostafakalhor

  committed
  95a6bc3

• fixed test_runner.py

  mostafakalhor

  committed
  197e0c5

• fixed pre commit

  mostafakalhor

  committed
  a7b6ab5

• do not run percolator on xl peptide level

  mostafakalhor

  committed
  3c795ce

• updated timeout to seconds instead of milliseconds

  mostafakalhor

  committed
  3a7e44e

Commits on Oct 29, 2024

• efficient prediction of peptide b

  mostafakalhor

  committed
  b91e622