# Report of DEG analysis

## Documentation for package ‘DEGreport’ version 1.12.0

- DESCRIPTION file.
- User guides, package vignettes and other documentation.
- Package NEWS.

## 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