Bioconductor - mastR

Bioconductor - mastR
Bioconductor 3.22
Software Packages
mastR
mastR
This is the
released
version of mastR; for the devel version, see
mastR
Markers Automated Screening Tool in R
DOI:
10.18129/B9.bioc.mastR
Bioconductor version:
Release (3.22)
mastR is an R package designed for automated screening of signatures of interest for specific research questions. The package is developed for generating refined lists of signature genes from multiple group comparisons based on the results from edgeR and limma differential expression (DE) analysis workflow. It also takes into account the background noise of tissue-specificity, which is often ignored by other marker generation tools. This package is particularly useful for the identification of group markers in various biological and medical applications, including cancer research and developmental biology.
Author:
Jinjin Chen [aut, cre]
ORCID: 0000-0001-7923-5723
, Ahmed Mohamed [aut, ctb]
ORCID: 0000-0001-6507-5300
, Chin Wee Tan [ctb]
ORCID: 0000-0001-9695-7218
Maintainer:
Jinjin Chen
Citation (from within R, enter
citation("mastR")
):
Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")

BiocManager::install("mastR")
For older versions of R, please refer to the appropriate
Bioconductor release
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("mastR")
mastR_Demo
HTML
R Script
mastR_Demo
HTML
R Script
Reference Manual
PDF
NEWS
Text
LICENSE
Text
Need some help? Ask on the Bioconductor Support site!
Details
biocViews
DifferentialExpression
GeneExpression
Software
Transcriptomics
Visualization
Version
1.10.2
In Bioconductor since
BioC 3.17 (R-4.3) (3 years)
License
MIT + file
LICENSE
Depends
R (>= 4.3.0)
Imports
AnnotationDbi
Biobase
dplyr
edgeR
ggplot2
ggpubr
, graphics, grDevices,
GSEABase
limma
Matrix
, methods,
msigdb
org.Hs.eg.db
patchwork
SeuratObject
(> 5.0.0),
SingleCellExperiment
, stats,
SummarizedExperiment
tidyr
, utils
System Requirements
URL
Bug Reports
See More
Suggests
BiocManager
BiocStyle
clusterProfiler
ComplexHeatmap
depmap
enrichplot
ggrepel
ggvenn
Glimma
gridExtra
jsonlite
knitr
rmarkdown
RobustRankAggreg
rvest
scuttle
singscore
splatter
testthat
(>= 3.0.0),
UpSetR
Linking To
Enhances
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report
Build Report
Package Archives
Follow
Installation
instructions to use this package in your R session.
Source Package
mastR_1.10.2.tar.gz
Windows Binary (x86_64)
mastR_1.10.2.zip
(64-bit only)
macOS Binary (x86_64)
mastR_1.10.2.tgz
macOS Binary (arm64)
mastR_1.10.2.tgz
Source Repository
git clone https://git.bioconductor.org/packages/mastR
Source Repository (Developer Access)
git clone git@git.bioconductor.org:packages/mastR
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