mycobacrvR (version 1.1)

iedb_arb_mhcii_nmer: Epitope conservation prediction for MHCII using IEDB-ARB server information

Description

iedb_arb_mhcii_nmer is a method to predict conservation of epitopes among orthologs for MHCII using IEDB-ARB server data

Usage

iedb_arb_mhcii_nmer(clas)

Arguments

clas

A character vector for server name

Value

iedb_arb_mhcii_nmer() will write two files in the working directory. One file contains the information of epitope and the other file contains metadata for epitope showing orthologs of H37Rv

Details

This function takes server name "IEDB_arbMHCII" as input into clas object. Input data for this function is present in "/data_mycobacrvR/iedb_arb_mhcii_out" directory, therefore set working directory to "~/data_mycobacrvR/iedb_arb_mhcii_out/" before using this function. IEDB-ARB server provides epitopes of different length.

Examples

# NOT RUN {
iedb_arb_mhcii_nmer("IEDB_arb_mhcii")
# }
# NOT RUN {
##Conservation of all epitopes from IEDB server
# }