GOxploreR (version 1.2.8)

visRsubDAGCC: Visualise the GO-DAG for a specific organism based on certain GO-terms

Description

A category in the organism-specific DAG is regarded as important if it contains at least one GO-terms from the vector given. The function does not visualise the entire organism's DAG, it accepts a range of GO-terms and DAG categories that contains these GO-terms are visualise. We refer to these categories as the important and everything else is faded out. The supported organisms are "Homo sapiens / Human", "Rattus norvegicus / Rat", "Mus musculus / Mouse", "Danio rerio / Zebrafish", "Caenorhabditis elegans / Worm" ,"Arabidopsis thaliana / Cress", "Saccharomyces cerevisiae / Yeast", "Schizosaccharomyces pombe / Fission yeast", "Drosophila melanogaster / Fruit fly", "Escherichia coli / E.coli".

Usage

visRsubDAGCC(goterm, organism)

Value

Returns a plot highlighting the important categories i.e. the categories containing the GO-terms of interest. If this argument is "CC" the general reduced GO CC tree is used.

Arguments

goterm

A vector of cellular component GO-terms

organism

The organism whose DAG we want to visualise based on the GO-terms supplied

Examples

# Visualised Human GO-DAG based on the GO-terms given
Terms <- c("GO:0030054","GO:0045171","GO:0043204")

visRsubDAGCC(goterm = Terms, organism = "Human")