CRAN/E | RCPA

RCPA

Consensus Pathway Analysis

Installation

About

Provides a set of functions to perform pathway analysis and meta analysis from multiple gene expression datasets, as well as visualization of the results. The package is a wrapper of the following packages: Ritchie et al. (2015) doi:10.1093/nar/gkv007, Love et al. (2014) doi:10.1186/s13059-014-0550-8, Robinson et al. (2010) doi:10.1093/bioinformatics/btp616, Korotkevich et al. (2016) , Efron et al. (2015) , and Gu, Z. (2012) .

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Key Metrics

Version 0.2.2
R ≥ 4.0
Published 2024-04-15 14 days ago
Needs compilation? no
License GPL-3
CRAN checks RCPA results

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Maintainer

Maintainer

Ha Nguyen

hvn0006@auburn.edu

Authors

Ha Nguyen

aut / cre

Zeynab Maghsoudi

aut

Phi Hung Bya

aut

Tin Nguyen

fnd

Material

Reference manual
Package source

Vignettes

RCPA

macOS

r-prerel

arm64

r-release

arm64

r-oldrel

arm64

r-prerel

x86_64

r-release

x86_64

Windows

r-prerel

x86_64

r-release

x86_64

r-oldrel

x86_64

Old Sources

RCPA archive

Depends

R ≥ 4.0
tidyr
dplyr
ggplot2
utils
stats

Imports

AnnotationDbi
SummarizedExperiment
BiocManager
Biobase
DESeq2
GEOquery
edgeR
limma
stringr ≥ 1.5.0
ggnewscale
ggrepel
graph
httr
rlang
ggpattern
scales
RobustRankAggreg
methods
jsonlite
IRdisplay

Suggests

knitr
rmarkdown
markdown
testthat ≥ 3.0.0
ROntoTools
fgsea
GSA
CePa
meta
png
ggvenn
RCurl
XML
S4Vectors
hgu133plus2.db
org.Hs.eg.db
oligo