alignAAStringSet: Aligns the set of amino acid sequences based on the chemical...

In asishallab/GeneFamilies: Analyses different properties of gene families

Aligns the set of amino acid sequences based on the chemical properties of their respective amino acid residues. Does so using MAFFT. NOTE: mafft is expected to be installed.

Description

Aligns the set of amino acid sequences based on the chemical properties of their respective amino acid residues. Does so using MAFFT. NOTE: mafft is expected to be installed.

Usage

alignAAStringSet(path.2.aa.seqs, path.2.aa.msa,
  mafft.call = getOption("mafft.call", paste("mafft --thread",
  getOption("mc.cores", 1), "--auto")))

Arguments

'path.2.aa.seqs'	the valid file path to the amino acid sequences FASTA
'path.2.aa.msa'	the valid file path to the amino acid multiple sequence alignment file that is to be generated
'mafft.call'	the string used to build the system command which invokes MAFFT.

Value

TRUE if and only of no error occurred.

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