bulkAnalyseR: Interactive Shiny App for Bulk Sequencing Data

Given an expression matrix from a bulk RNA-Seq experiment, pre-processes it and creates a shiny app for interactive data analysis and visualisation. The app contains quality checks, differential expression analysis, volcano and cross plots, enrichment analysis and gene regulatory network inference, and can be customised to contain more panels by the user.

Version: 0.1.1
Depends: R (≥ 4.0)
Imports: ggplot2, shinythemes, shiny, gprofiler2, edgeR, DESeq2, stats, ggrepel, utils, RColorBrewer, ComplexHeatmap, circlize, grid, shinyWidgets, shinyjqui, dplyr, magrittr, ggforce, rlang, glue, preprocessCore, matrixStats, noisyr, tibble, ggnewscale, ggrastr, GENIE3, visNetwork, DT, scales, shinyjs, tidyr
Suggests: rmarkdown, knitr, BiocManager, AnnotationDbi, org.Hs.eg.db, org.Mm.eg.db
Published: 2022-01-15
Author: Ilias Moutsopoulos [aut, cre], Eleanor Williams [aut, ctb], Irina Mohorianu [aut, ctb]
Maintainer: Ilias Moutsopoulos <im383 at cam.ac.uk>
BugReports: https://github.com/Core-Bioinformatics/bulkAnalyseR/issues
License: GPL-2
URL: https://github.com/Core-Bioinformatics/bulkAnalyseR
NeedsCompilation: no
Materials: README
CRAN checks: bulkAnalyseR results

Documentation:

Reference manual: bulkAnalyseR.pdf
Vignettes: bulkAnalyseR: An easy way to analyse and share bulk mRNA-Seq data

Downloads:

Package source: bulkAnalyseR_0.1.1.tar.gz
Windows binaries: r-devel: bulkAnalyseR_0.1.1.zip, r-release: bulkAnalyseR_0.1.1.zip, r-oldrel: bulkAnalyseR_0.1.1.zip
macOS binaries: r-release (arm64): bulkAnalyseR_0.1.1.tgz, r-release (x86_64): bulkAnalyseR_0.1.1.tgz, r-oldrel: not available

Linking:

Please use the canonical form https://CRAN.R-project.org/package=bulkAnalyseR to link to this page.