Core Utilities for Single-Cell RNA-Seq

Core utilities for single-cell RNA-seq data analysis. Contained within are utility functions for working with differential expression (DE) matrices and count matrices, a collection of functions for manipulating and plotting data via 'ggplot2', and functions to work with cell graphs and cell embeddings. Graph-based methods include embedding kNN cell graphs into a UMAP , collapsing vertices of each cluster in the graph, and propagating graph labels.

sccore

Core utilities for single-cell RNA-seq data analysis. Contained within are utility functions for working with differential expression (DE) matrices and count matrices, a collection of functions for manipulating and plotting data via 'ggplot2', and functions to work with cell graphs and cell embeddings. Graph-based methods include embedding kNN cell graphs into a UMAP, collapsing vertices of each cluster in the graph, and propagating graph labels.

Installation

To install the stable version from CRAN, use:

install.packages('sccore')

To install the latest version, use:

install.packages('devtools')
devtools::install_github('kharchenkolab/sccore')

Citation

If you find sccore useful for your publication, please cite:

Viktor Petukhov, Rasmus Rydbirk, Peter Kharchenko and Evan Biederstedt
(2021). sccore: Core Utilities for Single-Cell RNA-Seq. R package
version 1.0.7. https://github.com/kharchenkolab/sccore