NGSToolKit: RNA-Seq Analysis and Genome Visualization 'Shiny' Platform

Interactive 'Shiny' web application for comprehensive RNA-Seq data analysis, quality control, differential expression analysis with 'DESeq2', dimensionality reduction (PCA, t-SNE, UMAP), clustering, and integrated 'JBrowse 2' genome visualization. For differential expression analysis methods, see Love (2014) <doi:10.1186/s13059-014-0550-8>.

Version:	0.1.4
Depends:	R (≥ 4.0.0)
Imports:	shiny (≥ 1.7.0), shinydashboard (≥ 0.7.0), shinyjs (≥ 2.1.0), shinycssloaders (≥ 1.0.0), DT (≥ 0.20), ggplot2 (≥ 3.3.0), DESeq2, SummarizedExperiment, uwot, Rtsne, pheatmap, reshape2, Rsamtools, tools, jsonlite, utils, stats, graphics, grDevices
Suggests:	testthat (≥ 3.0.0)
Published:	2026-09-12
DOI:	10.32614/CRAN.package.NGSToolKit
Author:	Sona Charles [aut, cre], Febin T Nabeel [aut], T E Sheeja [aut]
Maintainer:	Sona Charles <sonacharlesicar at gmail.com>
BugReports:	https://github.com/bigfacilityiisr/NGS-Tool-Kit/issues
License:	GPL-3
URL:	https://github.com/bigfacilityiisr/NGS-Tool-Kit
NeedsCompilation:	no
Materials:	README
CRAN checks:	NGSToolKit results

Documentation:

Reference manual:

NGSToolKit.html , NGSToolKit.pdf

Downloads:

Package source:	NGSToolKit_0.1.4.tar.gz
Windows binaries:	r-devel: not available, r-release: not available, r-oldrel: not available
macOS binaries:	r-release (arm64): not available, r-oldrel (arm64): NGSToolKit_0.1.4.tgz, r-release (x86_64): NGSToolKit_0.1.4.tgz, r-oldrel (x86_64): NGSToolKit_0.1.4.tgz

Linking:

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