geneSubset: Search and annotate genes against known gene databases based...

In DPP4ResearchGroup/SyntenyViz: Visualize the synteny of a gene structure across species

Search and annotate genes against known gene databases based on AnnotationDbi

Description

Search and annotate genes against known gene databases based on AnnotationDbi

Usage

geneSubset(mycoords.gr, orgm)

Arguments

mycoords.gr

A target search range in form of a GRanges object

orgm

An organism that of interest. Options include: Btaurus(Bt) - Bos taurus - Cow Celegans(Ce) - Caenorhabditis elegans - Roundworm Cfamiliaris(Cf) - Canis familiaris - Dog Dmelanogaster(Dm) - Drosophila melanogaster - Fruitfly Drerio(Dr) - Danio rerio - Zebrafish Ggallus(Gg) - Gallus gallus - Chicken Hsapiens(Hs) - Homo Sapiens - Human Mmulatta(Mmu) - Macaca mulatta - Rhesus macaque Mmusculus(Mm) - Mus musculus - House mouse Ptroglodytes(Pt) - Pan troglodytes - Chimpanzee Rnorvegicus(Rn) - Rattus norvegicus - Brown rat Scerevisiae(Sc) - Saccharomyces cerevisiae - Brewer's yeast Sscrofa(Ss) - Sus scrofa - Wild swine

Value

A target search range as a GRanges object

Examples

## Not run: 
  mycoords.list <- "2:16e7:16.5e7"
  mycoords.gr <- coordFormat (mycoords.list)
  orgm <- "Hsapiens"
  geneSubset (mycoords.gr, orgm)

## End(Not run)

DPP4ResearchGroup/SyntenyViz documentation built on Nov. 19, 2023, 1:16 a.m.