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.


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0.1.1 by Evan Biederstedt, a month ago

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Authors: Peter Kharchenko [aut] , Viktor Petukhov [aut] , Ramus Rydbirk [aut] , Evan Biederstedt [aut, cre]

Documentation:   PDF Manual  

GPL-3 license

Imports dplyr, ggplot2, ggrepel, graphics, grDevices, igraph, magrittr, Matrix, methods, pROC, parallel, Rcpp, rlang, scales, tibble, utils, uwot, withr

Suggests ggrastr, pbapply, rmumps, testthat

Linking to Rcpp, RcppArmadillo, RcppProgress, RcppEigen

Imported by leidenAlg.

See at CRAN