DOI: 10.18129/B9.bioc.mastR  

This package is for version 3.17 of Bioconductor; for the stable, up-to-date release version, see mastR.

Markers Automated Screening Tool in R

Bioconductor version: 3.17

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] , Ahmed Mohamed [aut, ctb] , Chin Wee Tan [ctb]

Maintainer: Jinjin Chen <chen.j at>

Citation (from within R, enter citation("mastR")):


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biocViews DifferentialExpression, GeneExpression, Software, Transcriptomics, Visualization
Version 1.0.0
In Bioconductor since BioC 3.17 (R-4.3) (< 6 months)
License MIT + file LICENSE
Depends R (>= 4.3.0)
Imports AnnotationDbi, Biobase, dplyr, edgeR, ggplot2, ggpubr, graphics, grDevices, GSEABase, limma, Matrix, methods, msigdb,, patchwork, SeuratObject, SingleCellExperiment, stats, SummarizedExperiment, tidyr, utils
Suggests BiocManager, BiocStyle, BisqueRNA, clusterProfiler, ComplexHeatmap, depmap, enrichplot, ggrepel, ggvenn, gridExtra, jsonlite, knitr, rmarkdown, RobustRankAggreg, rvest, scuttle, singscore, splatter, testthat (>= 3.0.0), UpSetR
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