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ReportingTools

This is the development version of ReportingTools; for the stable release version, see ReportingTools.

Tools for making reports in various formats


Bioconductor version: Development (3.19)

The ReportingTools software package enables users to easily display reports of analysis results generated from sources such as microarray and sequencing data. The package allows users to create HTML pages that may be viewed on a web browser such as Safari, or in other formats readable by programs such as Excel. Users can generate tables with sortable and filterable columns, make and display plots, and link table entries to other data sources such as NCBI or larger plots within the HTML page. Using the package, users can also produce a table of contents page to link various reports together for a particular project that can be viewed in a web browser. For more examples, please visit our site: http:// research-pub.gene.com/ReportingTools.

Author: Jason A. Hackney, Melanie Huntley, Jessica L. Larson, Christina Chaivorapol, Gabriel Becker, and Josh Kaminker

Maintainer: Jason A. Hackney <hackney.jason at gene.com>, Gabriel Becker <becker.gabe at gene.com>, Jessica L. Larson <larson.jessica at gmail.com>

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

Installation

To install this package, start R (version "4.4") and enter:


if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

BiocManager::install("ReportingTools")

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("ReportingTools")
Reporting on microarray differential expression PDF R Script
Reporting on RNA-seq differential expression PDF R Script
ReportingTools basics PDF R Script
ReportingTools shiny PDF R Script
Reference Manual PDF
NEWS Text

Details

biocViews DataRepresentation, GO, GeneSetEnrichment, ImmunoOncology, Microarray, RNASeq, Software, Visualization
Version 2.43.2
In Bioconductor since BioC 2.11 (R-2.15) (11.5 years)
License Artistic-2.0
Depends methods, knitr, utils
Imports Biobase, hwriter, Category, GOstats, limma(>= 3.17.5), lattice, AnnotationDbi, edgeR, annotate, PFAM.db, GSEABase, BiocGenerics(>= 0.1.6), grid, XML, R.utils, DESeq2(>= 1.3.41), ggplot2, ggbio, IRanges
System Requirements
URL
See More
Suggests RUnit, ALL, hgu95av2.db, org.Mm.eg.db, shiny, pasilla, org.Sc.sgd.db, rmarkdown, markdown
Linking To
Enhances
Depends On Me
Imports Me affycoretools
Suggests Me cpvSNP, EnrichmentBrowser, GSEABase, npGSEA
Links To Me
Build Report Build Report

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package ReportingTools_2.43.2.tar.gz
Windows Binary ReportingTools_2.43.2.zip
macOS Binary (x86_64) ReportingTools_2.43.2.tgz
macOS Binary (arm64) ReportingTools_2.43.2.tgz
Source Repository git clone https://git.bioconductor.org/packages/ReportingTools
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/ReportingTools
Bioc Package Browser https://code.bioconductor.org/browse/ReportingTools/
Package Short Url https://bioconductor.org/packages/ReportingTools/
Package Downloads Report Download Stats