# Engineering Evaluation by Gene Categorization (eegc)

## Documentation for package ‘eegc’ version 1.0.0

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

## Help Pages

eegc-package | eegc
barplotEnrich | Barplot the enrichResult
cate.gene | Categorized genes
cate.ratio | Expression Difference ratios of categorized genes
categorizeGene | Gene Categorization
densityPlot | Quantify Genes and Corresponding ED ratios in Each Category
diffGene | Gene Expression Differential Analysis
diffgene.genes | Differential genes for three comparisons
dotPercentage | Percentage Calculation and Visualization
eegc | eegc
enrichment | Enrichment Analysis by Hypergeometric Distribution Test
expr.filter | Filtered expression data
functionEnrich | Funtional Enrichment Analysis
goenrich | GO enrichment results
grnPlot | Gene Regulatory Network Plot
heatmapPlot | Heatmap Plot of Enriched Terms
human.gene | Gene regulatory network based human cell/tissue-specific gene sets
human.grn | Human cell/tissue-specific gene-gene regulation
human.tf | Gene regulatory network based human cell/tissue-specific transcription factor (TF) regulated gene sets
markers | Marker genes
markerScatter | Scatter Plot for Gene Expression
mouse.gene | Gene regulatory network based mouse cell/tissue-specific gene sets
mouse.grn | Mouse cell/tissue-specific gene-gene regulation
mouse.tf | Gene regulatory network based mouse cell/tissue-specific transcription factor (TF) regulated gene sets
networkAnalyze | Network Topological Analysis
SandlerFPKM | RNA-seq data in FPKM A data frame containing 16692 gene in 7 samples from paper published by Sandler et.al. in 2014., samples are named from somatic dermal microvascular endothelial cell (DMEC) to induced multipotent haematopoietic progenitor (rEChMPP) cells and primary cord blood (CB) cells.
tissueGenes | Cell/Tissue specific gene sets
tissueGroup | Tissue mapping to groups