Changelog • celda

Update to match Bioconductor 3.15 release version

Fixes to reports
Use smoothe splines for perplexity and RPC plots

Improvments to decontX vignette
Added ability to subsample to speed up perplexity calculations
Added ability to use batch parameter with the raw matrix in decontX

Update to match Bioconductor release version

Fixed bug in checking background matrix with decontX
Switched to using Github Actions for Continuous Integration
Fixed plotting bugs in celda results reports
Speed up final step in decontX when creating final decontaminated matrix

Added a NEWS.md file to track changes to the package.
Added new tutorials and documentation generated with pkgdown.
Removed warnings in plotRPC functions.
Added use of “displayName” to several functions that show feature names.
Minor bug fix when the input matrix was sparse and contained non-integer values.
Several improvements to plotting functions.

Added handling for sparse matrices

Added functions for creating HTML reports
Fixed bug in decontX plotting

Enable input of raw/droplet matrix into decontX to estimate ambient RNA

Add multiclass decision tree

Add Alternate headings support for plotDimReduceFeature

Add multiclass decision tree (MCDT) cell cluster annotation

Fix a bug in celdaHeatmap

Default seed setting to maintain reproducibility

Minor changes to the vignettes

Remove pheatmap import

Package celda, for bi-clustering of single-cell ’omics data.

Second submission to Bioconductor

First submission to Bioconductor