TCGAanalyze_Clustering

is a dataframe or numeric matrix, each row represents a gene,
each column represents a sample come from TCGAPrepare.

tabDF

is method to be used for generic cluster such as 'hclust' or 'consensus'

method

is method to be used for Hierarchical cluster.

methodHC


Hierarchical cluster analysis using several methods such as
ward.D", "ward.D2", "single", "complete", "average" (= UPGMA), "mcquitty" (= WPGMA),
"median" (= WPGMC) or "centroid" (= UPGMC).


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_Clustering function

Hierarchical cluster analysis using several methods such as
ward.D", "ward.D2", "single", "complete", "average" (= UPGMA), "mcquitty" (= WPGMA),
"median" (= WPGMC) or "centroid" (= UPGMC).

TCGAanalyze_Clustering: Hierarchical cluster analysis

Description

Usage

Arguments

Value