iprWithSelectedAA: Identifies conserved protein domains (InterPro) overlapping...

In asishallab/GeneFamilies: Analyses different properties of gene families

Identifies conserved protein domains (InterPro) overlapping with the conserved homologous amino acid (codon) 'sel.aa'.

Description

Identifies conserved protein domains (InterPro) overlapping with the conserved homologous amino acid (codon) 'sel.aa'.

Usage

iprWithSelectedAA(sel.aa, gene, msa.fasta, iprscan.tbl)

Arguments

sel.aa	The index of the conserved amino acid under selection in the corresponding multiple sequence alignment (MSA)
gene	The gene accession / ID as used in 'msa.fasta'
msa.fasta	The result of seqinr::read.fasta(path_2_AAs_MSA.fasta, seqtype='AA', as.string=TRUE, strip.desc=TRUE).
iprscan.tbl	The result of calling readInterProScanResultTable(path_2_interproscan_result_table.tsv)

Value

A character vector of matching InterPro entries.

asishallab/GeneFamilies documentation built on July 28, 2024, 11:44 a.m.