Code

Add Snapatac2 wrappers#5740

Code

Merged

bgruening merged 34 commits intogalaxyproject:maingalaxyproject/tools-iuc:mainfrom y4nnick8:snapatac2y4nnick8/tools-iuc:snapatac2Copy head branch name to clipboardMay 16, 2024

+1,603

Commits

Commits on Jan 29, 2024

• Add Snapatac2 wrappers

  y4nnick8

  committed
  593574c

• add test data

  y4nnick8

  committed
  837ed38

Commits on Jan 31, 2024

• updated tools

  y4nnick8

  committed
  d231a22

Commits on Feb 1, 2024

• Merge branch 'galaxyproject:main' into snapatac2

  y4nnick8

  authored
  b76d68e

Commits on Feb 4, 2024

• Fix some tests

  pavanvidem

  committed
  445aaff

Commits on Feb 6, 2024

• Merge branch 'galaxyproject:main' into snapatac2

  y4nnick8

  authored
  2ff6e9b

Commits on Feb 8, 2024

• update tools

  y4nnick8

  committed
  4483a6c

Commits on Feb 14, 2024

• update

  y4nnick8

  committed
  6ccf0ac

• added metrics.tsse to preprocessing.xml

  y4nnick8

  committed
  3bb5c1c

Commits on Feb 19, 2024

• tests tutorial1

  y4nnick8

  committed
  b6e199b

• added tl.umap test

  y4nnick8

  committed
  ab0d586

• fix tl.umap by setting NUMBA_CACHE_DIR variable

  pavanvidem

  committed
  a5e25c3

Commits on Mar 1, 2024

• add .shed.yaml

  pavanvidem

  committed
  b63f6ab

• add location for large files

  pavanvidem

  committed
  73910ad

Commits on Mar 11, 2024

• delete test data larger than 1MB and remove checksum attribute for params

  pavanvidem

  committed
  3ee118b

Commits on Mar 20, 2024

• fix tool category in shed.yml

  pavanvidem

  committed
  c9c592c

Commits on Apr 4, 2024

• formatting and another try to test location attribute

  pavanvidem

  committed
  ebcb83a

• add ftype

  pavanvidem

  committed
  c6b05a6

Commits on Apr 18, 2024

• review and correct preprocessing params, tests need to be added

  pavanvidem

  committed
  3679e43

• review and correct preprocessing params

  pavanvidem

  committed
  34699c1

Commits on Apr 29, 2024

• update preprocessing tests with new data

  pavanvidem

  committed
  7c4fb99

Commits on May 13, 2024

• add more tests for snap.tl functions

  pavanvidem

  committed
  44e050d

Commits on May 14, 2024

• Remove unnecessary functions and change tool naming

  pavanvidem

  committed
  652cda8

• remove macs3 and multiprocess dependencies

  pavanvidem

  committed
  08cc7e2

• remove ipynb

  pavanvidem

  committed
  3da5543

Commits on May 15, 2024

• read anndata into memory to overcome anndata metadata problem

  pavanvidem

  committed
  2c42b52

• Use test data from Zenodo

  pavanvidem

  committed
  5aa8491

• update the help text and fix the last test

  pavanvidem

  committed
  4ef9ce8

• add two more dbscan clustering methods and fix njobs param

  pavanvidem

  committed
  3d8ef48

• add dbscan help

  pavanvidem

  committed
  941f7c1

Commits on May 16, 2024

• some fixes and styles

  bgruening

  authored
  40bd4e1

• Update plotting.xml

  bgruening

  authored
  c0c8b8b

• Update dimension_reduction_clustering.xml

  bgruening

  authored
  372e950

• Update preprocessing.xml

  bgruening

  authored
  690f24c