domainsForPos: Looks up the conserved protein domains (InterPro) that have...

In asishallab/GeneFamilies: Analyses different properties of gene families

Looks up the conserved protein domains (InterPro) that have been annotated to gene and overlap with amino acid position 'aa.pos'.

Description

Looks up the conserved protein domains (InterPro) that have been annotated to gene and overlap with amino acid position 'aa.pos'.

Usage

domainsForPos(gene, aa.pos, iprscan.tbl, gene.col = "V1",
  start.col = "V7", end.col = "V8", ipr.col = "V12")

Arguments

gene	The gene accession or ID as used in iprscan.tbl
aa.pos	The amino acid position (non aligned) to be overlapped by any InterPros
gene.col	The column index or name of iprscan.tbl in which to look up the gene accessions
start.col	The column index or name of iprscan.tbl in which to look up the domain start positions
end.col	The column index or name of iprscan.tbl in which to look up the domain end positions
ipr.col	The column index or name of iprscan.tbl in which to look up the InterPro identifier

Value

A character vector of matching InterPro domains.

asishallab/GeneFamilies documentation built on May 22, 2023, 11:30 a.m.