Package: tRanslatome
Type: Package
Title: Comparison between multiple levels of gene expression.
Version: 1.4.0
Date: 2013-11-28
Author: Toma Tebaldi, Erik Dassi, Galena Kostoska
Maintainer: Toma Tebaldi <tebaldi@science.unitn.it>, Erik Dassi
 <erik.dassi@unitn.it>
Depends: R (>= 2.15.0), methods, limma, sigPathway, samr, anota, DESeq,
        edgeR, RankProd, topGO, org.Hs.eg.db, GOSemSim, Heatplus,
        gplots, plotrix
Description: Detection of differentially expressed genes (DEGs) from
        the comparison of two biological conditions (treated vs.
        untreated, diseased vs. normal, mutant vs. wild-type) among
        different levels of gene expression (transcriptome
        ,translatome, proteome), using several statistical methods:
        Rank Product, Translational Efficiency, t-test, SAM, Limma,
        ANOTA, DESeq, edgeR. Possibility to plot the results with
        scatterplots, histograms, MA plots, standard deviation (SD)
        plots, coefficient of variation (CV) plots. Detection of
        significantly enriched post-transcriptional regulatory factors
        (RBPs, miRNAs, etc) and Gene Ontology terms in the lists of
        DEGs previously identified for the two expression levels.
        Comparison of GO terms enriched only in one of the levels or in
        both. Calculation of the semantic similarity score between the
        lists of enriched GO terms coming from the two expression
        levels. Visual examination and comparison of the enriched terms
        with heatmaps, radar plots and barplots.
License: LGPL
LazyLoad: yes
biocViews: CellBiology, GeneRegulation, GeneExpression,
        DifferentialExpression, Microarray, Sequencing, QualityControl,
        GO, MultipleComparison
Packaged: 2014-10-14 04:26:35 UTC; biocbuild
Built: R 3.1.1; ; 2014-10-14 14:07:09 UTC; windows
