# Transcriptional Disruption Score for Gene Sets

## Documentation for package ‘DSGEr’ version 1.3.1

- DESCRIPTION file
- Package README

## Help Pages

calc_dsge | Compute DSGE (Disruption Score of Gene Expression)
dsge_perm_test | Permutation test for DSGE enrichment of a single gene set
get_gaf_header | Extract header lines from a GAF file
get_pathway_genes | Extract gene-pathway (GO term) associations from GAF data
get_pathway_genes_db | Build pathway-gene mapping from a Bioconductor OrgDb object
get_pathway_genes_kegg | Build KEGG pathway-gene mapping from a Bioconductor OrgDb object
get_pathway_genes_reactome | Build Reactome pathway-gene mapping from a Bioconductor OrgDb object
pathway_dsge | Pathway-level DSGE permutation test with FDR correction
plot_dsge | Plot null distribution vs. observed DSGE for selected pathways
plot_dsge_volcano | Gene-level volcano plot for a specific pathway
read_gaf | Read a Gene Ontology Annotation File (GAF)
read_obo | Read GO term names from an OBO file