parseDomainInput {PhyloProfile} | R Documentation

## Parse domain input file

### 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 tran@bio.uni-frankfurt.de

### See Also

`getDomainFolder`

### Examples

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

[Package PhyloProfile version 1.2.8 Index]