Identifying Genes Overexpressed in Subsets of Tumors from Tumor-Normal mRNA Expression Data

Documentation for package ‘oncomix’ version 1.14.0

exprNmlIsof	Human Breast Cancer RNA-sequencing data from TCGA - Adj. Normal Tissue
exprTumIsof	Human Breast Cancer RNA-sequencing data from TCGA - Tumor Tissue
mixModelParams	Generate the parameters for two 2-component Gaussian mixture models with equal variances
oncoMixBimodal	Creating a schematic of a 2-component mixture model
oncoMixIdeal	Creating an ideal oncomix gene
oncoMixTraditionalDE	Creating a schematic of a traditional diff. expression experiment
plotGeneHist	Plot a histogram of gene expression values from tumor and adjacent normal tissue.
queryRes	Oncogene Database Mapping Gene Symbol to UCSC ID (kgID)
scatterMixPlot	Generate a scatter plot with the output from mixModelParams
topGeneQuants	Identify genes that meet pre-specified quantiles