UnSuperClassifier: Unsupervised Clustering

In AutoPipe: Automated Transcriptome Classifier Pipeline: Comprehensive Transcriptome Analysis

Description

A function for unsupervised Clustering of the data

Usage

UnSuperClassifier(data,clinical_data=NULL,thr=2,TOP_Cluster=150,TOP=100)

Arguments

data	the data for the clustering. Data should be in the following format: samples in columns and the genes in the rows (colnames and rownames accordingly). The rownames should be Entrez ID in order to plot a gene set enrichment analysis.
clinical_data	the clinical data provided by the user to plot under the heatmap. it will be plotted only if show_clin is TRUE. Default value is NULL. see details for format.
thr	The threshold for the PAMR algorithm default is 2.
TOP_Cluster	numeric; Number of genes in each cluster.
TOP	numeric; the number of the TOP genes to take from the gene exoression matrix see TopPAM TOP.

Details

sample data should be a data.frame with the sample names as rownames and the clinical triats as columns. each trait must be a numeric variable. @return the function is an autated Pipeline for clustering it plot cluster analysis for the geneset

AutoPipe documentation built on May 1, 2019, 7:28 p.m.