Package: EasyCellType
Title: Annotate cell types for scRNA-seq data
Version: 1.7.0
Authors@R: c(
	person(given="Ruoxing", family="Li", email="ruoxingli@outlook.com", role=c("aut", "cre", "ctb")),
	person(given="Ziyi", family="Li", email="zli16@mdanderson.org", role="ctb"))
Description: We developed EasyCellType which can automatically examine the input marker lists obtained from existing software such as Seurat over the cell markerdatabases. Two quantification approaches to annotate cell types are provided: Gene set enrichment analysis (GSEA) and a modified versio of Fisher's exact test. The function presents annotation recommendations in graphical outcomes: bar plots for each cluster showing candidate cell types, as well as a dot plot summarizing the top 5 significant annotations for each cluster.
License: Artistic-2.0
RoxygenNote: 7.3.1
Encoding: UTF-8
Depends: R (>= 4.2.0)
biocViews: SingleCell, Software, GeneExpression, GeneSetEnrichment
Imports: clusterProfiler, dplyr, forcats, ggplot2, magrittr, rlang,
        stats, org.Hs.eg.db, org.Mm.eg.db, AnnotationDbi, vctrs (>=
        0.6.4), BiocStyle
Suggests: knitr, rmarkdown, testthat (>= 3.0.0), Seurat, BiocManager,
        devtools, BiocStyle
VignetteBuilder: knitr
Config/testthat/edition: 3
git_url: https://git.bioconductor.org/packages/EasyCellType
git_branch: devel
git_last_commit: ecf1fde
git_last_commit_date: 2024-04-30
Repository: Bioconductor 3.20
Date/Publication: 2024-05-01
NeedsCompilation: no
Packaged: 2024-05-01 22:51:00 UTC; biocbuild
Author: Ruoxing Li [aut, cre, ctb],
  Ziyi Li [ctb]
Maintainer: Ruoxing Li <ruoxingli@outlook.com>
Built: R 4.4.0; ; 2024-05-02 18:38:50 UTC; unix
