CRAN/E | RaceID

RaceID

Identification of Cell Types, Inference of Lineage Trees, and Prediction of Noise Dynamics from Single-Cell RNA-Seq Data

Installation

About

Application of 'RaceID' allows inference of cell types and prediction of lineage trees by the 'StemID2' algorithm (Herman, J.S., Sagar, Grun D. (2018) doi:10.1038/nmeth.4662). 'VarID2' is part of this package and allows quantification of biological gene expression noise at single-cell resolution (Rosales-Alvarez, R.E., Rettkowski, J., Herman, J.S., Dumbovic, G., Cabezas-Wallscheid, N., Grun, D. (2023) doi:10.1186/s13059-023-02974-1).

System requirements C++17

Key Metrics

Version 0.3.5
R ≥ 3.5.0
Published 2024-04-03 15 days ago
Needs compilation? yes
License GPL-3
CRAN checks RaceID results

Downloads

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Maintainer

Maintainer

Dominic Grün

dominic.gruen@gmail.com

Authors

Dominic Grün

Material

Reference manual
Package source

Vignettes

An introduction to RaceID and StemID.

macOS

r-release

arm64

r-oldrel

arm64

r-release

x86_64

Windows

r-devel

x86_64

r-release

x86_64

r-oldrel

x86_64

Old Sources

RaceID archive

Depends

R ≥ 3.5.0

Imports

coop
compiler
cluster
FateID
FNN
fpc
ggplot2
grDevices
harmony
ica
igraph
irlba
leiden
locfit
methods
MASS
Matrix
matrixStats
parallel
pheatmap
princurve
quadprog
randomForest
runner
Rcpp
RColorBrewer
Rtsne
umap
vegan

Suggests

batchelor
DESeq2
knitr
rmarkdown
SingleCellExperiment
slingshot
SummarizedExperiment

LinkingTo

Rcpp ≥ 0.11.0