scTGIF

Quality control and cell type annotation for unannotated single-cell RNA-Seq data

Installation of Dependent Packages

# CRAN
install.packages("BiocManager", repos="http://cran.r-project.org")

# Bioconductor
library("BiocManager")
BiocManager::install(
    c("GSEABase", "Biobase", "SingleCellExperiment", "BiocStyle", "plotly",
    "tagcloud", "knitr", "msigdbr", "rmarkdown", "Rcpp", "S4Vectors",
    "SummarizedExperiment", "RColorBrewer", "nnTensor", "scales", "testthat"),
    update=TRUE, ask=FALSE)

Installation

git clone https://github.com/rikenbit/scTGIF/
R CMD INSTALL scTGIF

or type the code below in the R console window

install.packages("devtools", repos="http://cran.r-project.org")
library(devtools)
devtools::install_github("rikenbit/scTGIF")

Prerequisites

• R (3.6.0 or higher)
• pandoc (1.12.3 or higher)

License

Copyright (c) 2019 Koki Tsuyuzaki and RIKEN Bioinformatics Research Unit Released under the Artistic License 2.0.

Authors

• Koki Tsuyuzaki
• Itoshi Nikaido