get_LBCE: Extract linear B Cell epitopes from XML files retrieved from...

In fcampelo/epitopes: Processing and Feature Extraction for Epitope Data

Extract linear B Cell epitopes from XML files retrieved from IEDB.

Description

This function is used to extract information for linear B-cell epitopes from the XML files exported using the functionality provided by IEDB. It assumes that the user has downloaded the Complete Database Export from the XML Database Export field in IEDB's Database Export and extracted it in a given folder, which is passed as an argument to the function. This can be easily done with get_IEDB().

Usage

get_LBCE(data_folder, ncpus = 1, save_folder = NULL)

Arguments

data_folder	path (either relative or absolute) to the directory containing the XML files
ncpus	positive integer, number of cores to use
save_folder	path to folder for saving the output.

Value

A data.table containing the epitope data is returned invisibly.

Author(s)

Felipe Campelo ([e-mail])

Examples

my.dir   <- system.file("extdata/xml_examples", package="epitopes")
epitopes <- get_LBCE(my.dir)

fcampelo/epitopes documentation built on April 22, 2023, 12:23 a.m.