DOI: 10.18129/B9.bioc.transcriptogramer  

This package is for version 3.16 of Bioconductor; for the stable, up-to-date release version, see transcriptogramer.

Transcriptional analysis based on transcriptograms

Bioconductor version: 3.16

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 expressions are altered.

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

Maintainer: Diego Morais <vinx at>

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


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biocViews Clustering, DifferentialExpression, GeneExpression, GeneSetEnrichment, GraphAndNetwork, ImmunoOncology, Microarray, Network, RNASeq, Software, SystemsBiology, Transcription, Visualization
Version 1.20.0
In Bioconductor since BioC 3.6 (R-3.4) (5.5 years)
License GPL (>= 2)
Depends R (>= 3.4), methods
Imports biomaRt, data.table, doSNOW, foreach, ggplot2, graphics, grDevices, igraph, limma, parallel, progress, RedeR, snow, stats, tidyr, topGO
Suggests BiocStyle, knitr, rmarkdown, RUnit, BiocGenerics
SystemRequirements Java Runtime Environment (>= 6)
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