sciCSR 0.3.2 (Jul 11, 2024)

moved engine to convert between Seurat (.rds) and Scanpy (.h5ad) data objects to sceasy.

sciCSR 0.3.1 (Sep 12, 2023)

correct problems in annotatePairing to give correct classification of number of H/L BCR sequences annotated to each cell barcode.

sciCSR 0.3.0 (May 31, 2023)

new function getIsotype to allow grouping of cells based on any subset of the productive/sterile count matrix (i.e. allow grouping based on sterile transcript isotype)
new function mergIgHCountsToSeurat adds zeros for missing cells and merge productive/sterile count matrix into Seurat object.
unit tests implemented using testthat.

sciCSR 0.2.1 (Feb 1, 2023)

fixed issues re distributed computing in python across MacOS and Windows.
added functions for basic scRNA-seq data preprocessing (normalise_dimreduce) which includes customisable pruning of variably expressed genes, collapse VDJ (or other genes) into metagenes etc (collapseIntoMetaGenes).

sciCSR 0.2.0 (Jan 30, 2023)

removed velocyto.R dependency to avoid installation problems.
fixed minor issues for cross-platform (MacOS / Linux) installation and use.
fixed issues with multiprocessing in TPT calculations.
added a NEWS.md file to track changes to the package.
functional vignette site via pkgdown.

sciCSR 0.1.1 (Jan 16, 2023)

added new functions for plotting TPT isotype results.
NMF-based calculation of CSR potential.
functions to merge repertoire.
plot arrow-style velocity streams a-la-scVelo.

sciCSR 0.1.0 (Sep 8, 2022)

first version of working package.