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Peptides#533

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JanniRoebbecke wants to merge 46 commits intodevcschlaffner/PROTzilla2:devfrom peptidescschlaffner/PROTzilla2:peptidesCopy head branch name to clipboard

+78-25

Commits

Commits on Mar 23, 2024

• evidence import

  

  janni.roebbecke

  committed
  fa28ee3

• tests

  

  janni.roebbecke

  committed
  2f0c566

Commits on Mar 27, 2024

• filter proteins

  

  janni.roebbecke

  committed
  49be94b

• filter sampels

  

  janni.roebbecke

  committed
  2bdae08

Commits on Mar 31, 2024

• Select Peptides by group or sample for coverage visualisation (#410)

  Show description for 104c49b
  

  antonneubauer

  and

  henninggaertner

  authored
  104c49b

Commits on Apr 3, 2024

• tests for filter_proteins with peptide file

  

  janni.roebbecke

  committed
  9b983dd

• tests for filter_proteins with peptide file, better mock dataframe

  

  janni.roebbecke

  committed
  ba0d58e

• output types

  

  janni.roebbecke

  committed
  f07ff7e

• added testing that only filtered Proteins are removed from peptides_df

  

  janni.roebbecke

  committed
  12c1d5c

• tests for filter_samples with peptide file

  

  janni.roebbecke

  committed
  66cd83b

Commits on Apr 4, 2024

• extract test that peptide filtering matches protein filtering into Method

  

  janni.roebbecke

  committed
  f18c8c4

• Merge branch '456-addapt-outlier-detection-for-peptides' into 454-addapt-filtering-for-peptides

  

  janni.roebbecke

  committed
  16f71ea

• refactor: shortened tests by integrating extracted method and mock data

  

  janni.roebbecke

  committed
  2aedccd

• exclude peptides

  

  janni.roebbecke

  committed
  a297922

Commits on Apr 5, 2024

• tests

  

  janni.roebbecke

  committed
  7d115ff

• minor fixes in test

  

  janni.roebbecke

  committed
  4e738e6

• minor fixes in test

  

  janni.roebbecke

  committed
  d77da64

• fix test that peptide filtering matches protein filtering Method

  

  janni.roebbecke

  committed
  6f7d8f7

• fix test that peptide filtering matches protein filtering Method

  

  janni.roebbecke

  committed
  6f12a76

• fix test that peptide filtering matches protein filtering Method

  

  janni.roebbecke

  committed
  f635008

• fix test that peptide filtering matches protein filtering Method

  

  janni.roebbecke

  committed
  cd8fa06

Commits on Apr 6, 2024

• match mock protein dataframe to mock peptide dataframe

  

  janni.roebbecke

  committed
  f62b4f6

Commits on Apr 7, 2024

• extract test that peptide filtering matches protein filtering into Method

  

  janni.roebbecke

  committed
  1c73f76

• implementation

  

  janni.roebbecke

  committed
  83fd7a5

• tests

  

  janni.roebbecke

  committed
  1766d36

Commits on Apr 9, 2024

• tests improve error logging

  

  janni.roebbecke

  committed
  6584acd

• tests git testing

  

  janni.roebbecke

  committed
  f578555

• peptide import added missing column

  

  janni.roebbecke

  committed
  3bf6a7d

Commits on May 26, 2024

• Merge remote-tracking branch 'refs/remotes/origin/452-import-evidence-file' into peptides

  Show description for 25f15e8
  

  janni.roebbecke

  committed
  25f15e8

Commits on May 27, 2024

• merge peptide filtering

  

  janni.roebbecke

  committed
  2beca7a

Commits on May 28, 2024

• Merge remote-tracking branch 'refs/remotes/origin/456-addapt-outlier-detection-for-peptides' into peptides

  Show description for 0cee245
  

  janni.roebbecke

  committed
  0cee245

• merge peptide filtering and outlier_detection

  

  janni.roebbecke

  committed
  084a10d

• Merge remote-tracking branch 'refs/remotes/origin/455-addapt-transformation-for-peptides' into peptides

  Show description for dc790be
  

  janni.roebbecke

  committed
  dc790be

• merge peptide transformation

  

  janni.roebbecke

  committed
  0e1886a

• implement passing of peptide data between preprocessing steps

  

  janni.roebbecke

  committed
  4733972

• complete implement passing of peptide data between preprocessing steps

  

  janni.roebbecke

  committed
  fd8b555

• implement overhead for new step evidence import

  

  janni.roebbecke

  committed
  e722b27

Commits on May 29, 2024

• Fix EvidenceImport class (now the right method is called)

  

  janni.roebbecke

  committed
  590396a

Commits on Jun 4, 2024

• implement suggested changes: remove default values and correct grammar mistake

  

  janni.roebbecke

  committed
  c90e845

Commits on Jun 5, 2024

• make preprocessing work without peptide_df

  

  janni.roebbecke

  committed
  8a2f243

• clean up

  

  janni.roebbecke

  committed
  2a22e61

• add cleaning of protein groups to evidence import

  

  janni.roebbecke

  committed
  4e7d4a8

• clean Protein IDs for peptide_import and name intensity column Intensity

  

  janni.roebbecke

  committed
  c13c6b5

• implement requested changes: make peptide_df input optional for all preprocessing steps, remove peptide_df input in preprocessing steps, where it is not used

  

  janni.roebbecke

  committed
  8a49a7b

Commits on Sep 13, 2024

• Fixed Intensity name

  

  janni.roebbecke

  committed
  2b05a0b

Commits on Nov 11, 2024

• Merge branch 'refs/heads/dev' into peptides

  Show description for 219ccaf
  

  janni.roebbecke

  committed
  219ccaf