Bioconductor - ReportingTools
Bioconductor 3.22
Software Packages
ReportingTools
ReportingTools
This is the
released
version of ReportingTools; for the devel version, see
ReportingTools
Tools for making reports in various formats
DOI:
10.18129/B9.bioc.ReportingTools
Bioconductor version:
Release (3.22)
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
Citation (from within R, enter
citation("ReportingTools")
):
Installation
To install this package, start R (version "4.5") 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")
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
Need some help? Ask on the Bioconductor Support site!
Details
biocViews
DataRepresentation
GO
GeneSetEnrichment
ImmunoOncology
Microarray
RNASeq
Software
Visualization
Version
2.50.0
In Bioconductor since
BioC 2.11 (R-2.15) (13.5 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_2.50.0.tar.gz
Windows Binary (x86_64)
ReportingTools_2.50.0.zip
macOS Binary (x86_64)
ReportingTools_2.50.0.tgz
macOS Binary (arm64)
ReportingTools_2.50.0.tgz
Source Repository
git clone https://git.bioconductor.org/packages/ReportingTools
Source Repository (Developer Access)
git clone git@git.bioconductor.org:packages/ReportingTools
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