Report of DEG analysis

Documentation for package ‘DEGreport’ version 1.12.0

Help Pages

createReport	Create report of RNAseq DEG anlaysis
degBI	Get the estimates of the fold change (FC) mean from a FC distribution using bayesian inference
degBIcmd	Apply bayesian inference to estimate the average fold change (FC) of a distribution
degCheckFactors	Distribution of gene ratios used to calculate Size Factors.
degComb	Get random combinations of two groups
degFC	get the FC for each gene between two groups
degMB	Distribution of expression of DE genes compared to the background
degMean	Distribution of pvalues by expression range
degMerge	Integrate data comming from degPattern into one data object
degMV	Correlation of the standard desviation and the mean of the abundance of a set of genes.
degNcomb	Get number of potential combinations of two vectors
degObj	Create a deg object that can be used to plot expression values at shiny server:runGist(9930881)
degPatterns	Make groups of genes using expression profile
degPlot	Plot top genes allowing more variables to color and shape points
degPlotWide	Plot selected genes on a wide format
degPR	plot the correlation between the rank according estimator and the rank according FC
degQC	Plot main figures showing p-values distribution and mean-variance correlation
degRank	Get rank data frame with best score on the top
DEGreportSet	List of process geuvadis data to test the package
degResults	Complete report from DESeq2 analysis
degVar	Distribution of pvalues by standard desviation range
degVB	Distribution of the standard desviation of DE genes compared to the background
degVolcano	Create volcano plot from log2FC and adjusted pvalues data frame
geneInfo	data.frame with chromose information for each gene
humanSexDEedgeR	DGEList object for DE genes betwen Male and Females
show_deseq2_results	Complete report from DESeq2 analysis