v1.1.5

What's Changed

• Update dependencies by @mumichae in #396
• Fix argument deprecation by @mumichae in #404

Full Changelog: v1.1.4...v1.1.5

v1.1.4

What's Changed

• Add GPU_id param for DESC by @johnarevalo in #372
• Update documentation clustering by @mumichae in #373
• more readable PCA computation and info retrieval by @mumichae in #377
• Set names when reading LISI CSV files by @lazappi in #380

Full Changelog: v1.1.3...v1.1.4

What's Changed

• Add GPU_id param for DESC by @johnarevalo in #372
• Update documentation clustering by @mumichae in #373
• more readable PCA computation and info retrieval by @mumichae in #377
• Set names when reading LISI CSV files by @lazappi in #380

Full Changelog: v1.1.3...v1.1.4

v1.1.3

What's Changed

• Run iso label as discussed on friday by @danielStrobl in #370
• Scale isolated label ASW by @mumichae in #371
• Fix PCA regression error for sparse matrices by @mumichae in #364

Full Changelog: v1.1.2...v1.1.3

v1.1.2

What's Changed

• Fix code coverage by @mumichae in #347
• Fix sc best practices link by @mumichae in #356
• Add perfect isolabel ASW test by @mumichae in #362
• Make louvain an optional dependency by @mumichae in #361
• Update isolated_labels.py by @danielStrobl in #368

Full Changelog: v1.1.1...v1.1.2

v1.1.1

Full Changelog: v1.1.0...v1.1.1

v1.1.0

What's Changed

• Add documentation for metrics preprocessing by @mumichae in #312
• Add test for duplicate columns by @mumichae in #311
• add deprecation decorator for asw_batch by @mumichae in #354

Full Changelog: v1.0.5...v1.1.0

v1.0.5

What's Changed

• Make rpy2 and anndata2ri optional by @mumichae in #339
• Fix batch silhouette bug by @mumichae in #342
• General optimised clustering function by @mumichae in #343
• Only pass max_epochs to SCVI.train if set by @scottgigante-immunai in #345
• add harmony by @adamgayoso in #317
• Fix kBET import issue by @mumichae in #350
• Update louvain to 0.8 by @scottgigante-immunai in #346

New Contributors

• @scottgigante-immunai made their first contribution in #345

Full Changelog: v1.0.4...v1.0.5

v1.0.4

What's Changed

• Update to scvi tools again, also scgen which now uses scvi tools by @adamgayoso in #316
• Fix scanvi bug by @mumichae in #327
• Fix deprecation warning by @mumichae in #326
• Bump rp2y dependency by @mumichae in #334

Full Changelog: v1.0.3...v1.0.4

v1.0.3

What's Changed

• Add pre-commit by @MxMstrmn in #307
• Fix duplicate cols scanorama by @MxMstrmn in #306
• Fix scanorama batch reordering by @mumichae in #309
• Add option to use leiden by @scottgigante in #203
• Avoid filtering in normalization by @scottgigante in #208

New Contributors

• @MxMstrmn made their first contribution in #307

Full Changelog: v1.0.2...v1.0.3

What's Changed

• Add pre-commit by @MxMstrmn in #307
• Fix duplicate cols scanorama by @MxMstrmn in #306
• Fix scanorama batch reordering by @mumichae in #309
• Add option to use leiden by @scottgigante in #203
• Avoid filtering in normalization by @scottgigante in #208

New Contributors

• @MxMstrmn made their first contribution in #307

Full Changelog: v1.0.2...v1.0.3

v1.0.2

What's Changed

• Addressing installation issues by @mumichae in #297
• Update highly_variable_genes.py by @danielStrobl in #269
• Documentation by @mumichae in #279
• Improve LISI multiprocessing specification by @mumichae in #301
• Fix LISI warning error by @mumichae in #302

Full Changelog: v1.0.1...v1.0.2