ReportingTools
This package is for version 3.9 of Bioconductor; for the stable, up-to-date release version, see ReportingTools.
Tools for making reports in various formats
Bioconductor version: 3.9
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("ReportingTools")):
Installation
To install this package, start R (version "3.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
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")| Knitr and ReportingTools | HTML | R Script |
| Reporting on microarray differential expression | R Script | |
| Reporting on RNA-seq differential expression | R Script | |
| ReportingTools basics | R Script | |
| ReportingTools shiny | R Script | |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | DataRepresentation, GO, GeneSetEnrichment, ImmunoOncology, Microarray, RNASeq, Software, Visualization |
| Version | 2.24.0 |
| 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 |
| Linking To | |
| Enhances | |
| Depends On Me | rnaseqGene |
| Imports Me | affycoretools, EnrichmentBrowser |
| Suggests Me | cpvSNP, 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_2.24.0.tar.gz |
| Windows Binary | ReportingTools_2.24.0.zip |
| Mac OS X 10.11 (El Capitan) | ReportingTools_2.24.0.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 |
| Old Source Packages for BioC 3.9 | Source Archive |