parseDomainInput: Parse domain input file

In PhyloProfile: PhyloProfile

Description

Get all domain annotations for one seed protein IDs.

Usage

parseDomainInput(seed = NULL, inputFile = NULL, type = "file")

Arguments

seed	seed protein ID
inputFile	name of input file (file name or path to folder contains individual domain files)
type	type of data (file" or "folder"). Default = "file".

Value

A dataframe for protein domains including seed ID, its orthologs IDs, sequence lengths, feature names, start and end positions, feature weights (optional) and the status to determine if that feature is important for comparison the architecture between 2 proteins* (e.g. seed protein vs ortholog) (optional).

Author(s)

Vinh Tran [e-mail]

See Also

getDomainFolder

Examples

seed <- "101621at6656"
inputFile <- system.file(
    "extdata", "domainFiles/101621at6656.domains",
    package = "PhyloProfile", mustWork = TRUE
)
type <- "file"
parseDomainInput(seed, inputFile, type)

PhyloProfile documentation built on March 27, 2021, 6:01 p.m.