Extract abundance profile of InterProScan output.

Reads a table object created with InterProScan and generates a profile table of abundance with the hits of the KEGG, PFAM or INTERPRO databases. The output of KEGG database can be used within mapping_ko.

read_interpro(data_interpro, database=c("KEGG", "PFAM", 
"INTERPRO"), profile = TRUE)

Arguments

data_interpro	a table, output of InterProScan on tsv format. InterProScan should have been run with -pa option to be able to use the KEGG option, in the database argument.
database	a character indicating for which database do you want to get the abundance profile. Valid options are "KEGG", "PFAM" or "INTERPRO".
profile	a logical value indicating if you want to print a profile or not. This option is valid for "PFAM" and "INTERPRO" database.

Details

This function is part of a package used for the analysis of bins metabolism.

Examples

if (FALSE) {
read_interpro(data_interpro="InterProScan.tsv", database="PFAM", 
profile = F)
}