CRAN/E | scGOclust

scGOclust

Measuring Cell Type Similarity with Gene Ontology in Single-Cell RNA-Seq

Installation

About

Traditional methods for analyzing single cell RNA-seq datasets focus solely on gene expression, but this package introduces a novel approach that goes beyond this limitation. Using Gene Ontology terms as features, the package allows for the functional profile of cell populations, and comparison within and between datasets from the same or different species. Our approach enables the discovery of previously unrecognized functional similarities and differences between cell types and has demonstrated success in identifying cell types' functional correspondence even between evolutionarily distant species.

github.com/Papatheodorou-Group/scGOclust
Bug report File report

Key Metrics

Version 0.2.1
R ≥ 2.10
Published 2024-01-24 100 days ago
Needs compilation? no
License GPL (≥ 3)
CRAN checks scGOclust results

Downloads

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Maintainer

Maintainer

Yuyao Song

ysong@ebi.ac.uk

Authors

Yuyao Song

aut / cre / ctb

Irene Papatheodorou

aut / ths

Material

README
Reference manual
Package source

Vignettes

scGOclust_vignette

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

scGOclust archive

Depends

R ≥ 2.10

Imports

limma
Seurat ≥ 5.0.0
biomaRt
dplyr
magrittr
stats
tibble
tidyr
Matrix
utils
networkD3
slanter

Suggests

knitr
devtools
pheatmap
rmarkdown
httr