TCGAanalyze_DEA_Affy

A matrix-like data object containing log-ratios or log-expression values
for a series of arrays, with rows corresponding to genes and columns to samples

AffySet

FC.cut


Differentially expression analysis (DEA) using limma package.


The aim of TCGAbiolinks is : i) facilitate the TCGA open-access
data retrieval, ii) prepare the data using the appropriate pre-processing
strategies, iii) provide the means to carry out different standard analyses
and iv) allow the user to download a specific version of the data and thus
to easily reproduce earlier research results. In more detail, the package
provides multiple methods for analysis (e.g., differential expression analysis,
identifying differentially methylated regions) and methods for visualization
(e.g., survival plots, volcano plots, starburst plots) in order to easily
develop complete analysis pipelines.

Antonio Colaprico

TCGAbiolinks

TCGAbiolinks: An R/Bioconductor package for integrative analysis with
TCGA data

TCGAanalyze_DEA_Affy function

Differentially expression analysis (DEA) using limma package.

TCGAanalyze_DEA_Affy: Differentially expression analysis (DEA) using limma package.

Description

Usage

Arguments

Value

Examples