ReportingTools

Tools for making reports in various formats

Bioconductor version: Development (3.0)

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 gene.com>

To install this package, start R and enter:

    source("http://bioconductor.org/biocLite.R")
    biocLite("ReportingTools")

To cite this package in a publication, start R and enter:

    citation("ReportingTools")

Documentation

PDF R Script Reporting on microarray differential expression
PDF R Script Reporting on RNA-seq differential expression
PDF R Script ReportingTools basics
PDF R Script ReportingTools shiny
HTML R Script Knitr and ReportingTools
PDF   Reference Manual
Text   NEWS

Details

biocViews Bioinformatics, DataRepresentation, Enrichment, GO, GeneSetEnrichment, Microarray, RNASeq, Software, Visualization
Version 2.5.0
In Bioconductor since BioC 2.11 (R-2.15)
License Artistic-2.0
Depends methods, knitr
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), IRanges, ggplot2, ggbio
Suggests RUnit, ALL, hgu95av2.db, org.Mm.eg.db, shiny, pasilla
System Requirements
URL
Depends On Me
Imports Me affycoretools, biosvd
Suggests Me GSEABase, npGSEA

Package Downloads

Package Source ReportingTools_2.5.0.tar.gz
Windows Binary ReportingTools_2.5.0.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard) ReportingTools_2.5.0.tgz
Mac OS X 10.9 (Mavericks)
Package Downloads Report Download Stats

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