NEWS.md

SCPA v1.3.0

Major changes

• The main function of SCPA has been rewritten to be much more efficient with memory usage. This means that RAM availability is likely not going to be limiting on a typical computer i.e. 8GB RAM, even with a huge number of comparisons.
• The speed of the pathway comparisons is also slightly improved

Minor changes

• Added the option to filter gene set size in compare_seurat()

SCPA v1.2.1

Minor changes

• Add functionality to choose assay in Seurat object

SCPA v1.2

Major changes

• Add functionality to deal with SingleCellExperiment objects
• sce_extract can now extract data from SCE objects based on colData
• compare_sce can now compare pathways directly within an SCE object

SCPA v1.1

Major changes

• Add functionality to visualise results from SCPA with plot_rank() and plot_heatmap()

Minor changes

• Improve messaging with compare_pathways()

SCPA v1.0.0

Minor changes

• Allow usage of multiple file types for pathways e.g. gmt, csv
• Fix CRAN archive with multicross and crossmatch

SCPA v0.0.0.9000

• Release SCPA for multivariate testing of pathways in scRNA-seq data