transcriptogramer

DOI: 10.18129/B9.bioc.transcriptogramer    

Transcriptional analysis based on transcriptograms

Bioconductor version: Release (3.6)

R package for transcriptional analysis based on transcriptograms, a method to analyze transcriptomes that projects expression values on a set of ordered proteins, arranged such that the probability that gene products participate in the same metabolic pathway exponentially decreases with the increase of the distance between two proteins of the ordering. Transcriptograms are, hence, genome wide gene expression profiles that provide a global view for the cellular metabolism, while indicating gene sets whose expression are altered.

Author: Diego Morais [aut, cre], Rodrigo Dalmolin [aut]

Maintainer: Diego Morais <arthur.vinx at gmail.com>

Installation

To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("transcriptogramer")

Documentation

HTML	R Script	The transcriptogramer user's guide
PDF		Reference Manual
Text		NEWS

Details

biocViews	GeneExpression, GeneSetEnrichment, GenomeWideAssociation, Network, Software, SystemsBiology, Visualization
Version	1.0.0
License	GPL (>= 2)
Depends	R (>= 3.4), methods
Imports	biomaRt, data.table, doSNOW, foreach, graphics, grDevices, igraph, limma, parallel, progress, RedeR, snow, stats, topGO
LinkingTo
Suggests	BiocStyle, knitr, rmarkdown, RUnit, BiocGenerics
SystemRequirements	Java Runtime Environment (>= 6)
Enhances
URL
Depends On Me
Imports Me
Suggests Me
Build Report

Package Archives

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

Source Package	transcriptogramer_1.0.0.tar.gz
Windows Binary	transcriptogramer_1.0.0.zip
Mac OS X 10.11 (El Capitan)	transcriptogramer_1.0.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/transcriptogramer
Package Short Url	http://bioconductor.org/packages/transcriptogramer/
Package Downloads Report	Download Stats