https://github.com/cbib/seurat-integrate - Version 0.4.0

Support:

Scoring functions

• ARI
• NMI
• ASW (silhouette)
• Graph connectivity
• Multiple cell label variables accepted

Scores management

• Possibility to save scores inside the Seurat object
• Score scaling
• Visualization methods to compare integrations

- R
Published by fspecque over 1 year ago

https://github.com/cbib/seurat-integrate - Version 0.3.1

Support:

Same as 0.3.0 but patches multiple defects, notably the Cell Cycle Conservation score.

- R
Published by fspecque almost 2 years ago

https://github.com/cbib/seurat-integrate - Version 0.3.0

Support:

Integration methods (and a manager of conda environments)

• bbknn
• ComBat(-seq)
• Harmony
• MNN (classical)
• Scanorama
• scANVI
• scVI
• trVAE ### Scoring functions
• PCA-based scores
• LISI scores

Object transformations

• Symmetrize distance matrices
• Dijkstra's algorithm-derived knn graph extension
• Cut knn graphs

- R
Published by fspecque almost 2 years ago

https://github.com/cbib/seurat-integrate - Version 0.2.0

Support:

• Harmony
• MNN (classical)
• scVI
• scANVI
• Scanorama

Embed a manager of conda environments

- R
Published by fspecque over 2 years ago