get_positivePPI {HPiP} | R Documentation |
This function retrieves positive reference host-pathogen protein-protein interactions directly from BioGRID database.
get_positivePPI( organism.taxID, access.key, filename = "PositiveInt.RData", path = "PositiveInt" )
organism.taxID |
Taxonomy identifier for the pathogen. |
access.key |
Access key for using BioGRID webpage. To retrieve interactions from the BioGRID database, the users are first required to register for access key at https://webservice.thebiogrid.org/. |
filename |
A character string, indicating the output filename as an RData object to store the retrieved interactions. |
path |
A character string indicating the path to the project directory that contains the interaction data. If the directory is missing, it will be stored in the current directory. Default is PositiveInt. |
get_positivePPI
A Data.frame containing true positive protein-protein interactions for the selected pathogen.
Matineh Rahmatbakhsh, matinerb.94@gmail.com
See get_negativePPI
for generating negative
protein-protein interaction.
local = tempdir() try(get_positivePPI(organism.taxID = 2697049, access.key = 'XXXX', filename = "PositiveInt.RData", path = local))