Automated Transcriptome Classifier Pipeline: Comprehensive Transcriptome Analysis
Released Feb 27, 2019 by Karam Daka
This package cannot yet be used with Renjin it depends on other packages which are not available: fgsea, org.Hs.eg.db, ConsensusClusterPlus, clusterProfiler, annotate, siggenes, and msigdbr 6.2.1
An unsupervised fully-automated pipeline for transcriptome analysis or a supervised option to identify characteristic genes from predefined subclasses. We rely on the 'pamr' clustering algorithm to cluster the Data and then draw a heatmap of the clusters with the most significant genes and the least significant genes according to the 'pamr' algorithm. This way we get easy to grasp heatmaps that show us for each cluster which are the clusters most defining genes.