KEGGprofile

DOI: 10.18129/B9.bioc.KEGGprofile    

This package is deprecated. It will probably be removed from Bioconductor. Please refer to the package end-of-life guidelines for more information.

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

An annotation and visualization package for multi-types and multi-groups expression data in KEGG pathway

Bioconductor version: Development (3.14)

KEGGprofile is an annotation and visualization tool which integrated the expression profiles and the function annotation in KEGG pathway maps. The multi-types and multi-groups expression data can be visualized in one pathway map. KEGGprofile facilitated more detailed analysis about the specific function changes inner pathway or temporal correlations in different genes and samples.

Author: Shilin Zhao, Yan Guo, Yu Shyr

Maintainer: Shilin Zhao <shilin.zhao at vanderbilt.edu>

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

Installation

To install this package, start R (version "4.1") and enter:

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

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

BiocManager::install("KEGGprofile")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

PDF   Reference Manual

Details

biocViews KEGG, Pathways, Software
Version 1.35.1
In Bioconductor since BioC 2.11 (R-2.15) (9 years)
License GPL (>= 2)
Depends
Imports AnnotationDbi, png, TeachingDemos, XML, KEGG.db, KEGGREST, biomaRt, RCurl, ggplot2, reshape2
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Build Report  

Package Archives

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

Source Package
Windows Binary
macOS 10.13 (High Sierra)
Source Repository git clone https://git.bioconductor.org/packages/KEGGprofile
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/KEGGprofile
Package Short Url https://bioconductor.org/packages/KEGGprofile/
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