Code

Optimize pca#469

Code

Merged

Xiaojieqiu merged 18 commits intomasteraristoteleo/dynamo-release:masterfrom optimize_PCAaristoteleo/dynamo-release:optimize_PCACopy head branch name to clipboardApr 5, 2023

+413-149

Commits

Commits on Mar 21, 2023

• create optimized truncatedSVD function

  Sichao25

  committed
  a8c1303

• use optimized truncatedSVD for sparse data PCA

  Sichao25

  committed
  65acbf1

• add test for pca

  Sichao25

  committed
  2d205c3

Commits on Mar 24, 2023

• create pca object in optimized code

  Sichao25

  committed
  2d0b8b7

• change sklearn PCA to randomized

  Sichao25

  committed
  88ddf8b

Commits on Mar 27, 2023

• add incremental PCA

  Sichao25

  committed
  74ebcb8

• minor change on duplicate operations and docstrings

  Sichao25

  committed
  f1f72cb

Commits on Mar 28, 2023

• update docstrings

  Sichao25

  committed
  172c772

Commits on Mar 31, 2023

• update pca parameters

  Sichao25

  committed
  e7a71ee

• create helper function

  Sichao25

  committed
  8d83262

• create new recipe and update pca test

  Sichao25

  committed
  ba9740c

• add comments and docstring to LinearOperator

  Sichao25

  committed
  2a210a3

Commits on Apr 3, 2023

• update docstring

  

  sichao1

  committed
  7f57658

• rename pca_monocle to pca

  Sichao25

  committed
  86592dd

• protect filter_cells and update docstring

  Sichao25

  committed
  2db54d6

• debug is_log1p_transformed_adata

  Sichao25

  committed
  bbe663d

• update standardize_data

  Sichao25

  committed
  60022f8

• set solver for svds

  Sichao25

  committed
  7801822