loadBioplex: load Bioplex data

In vitkl/MItools: Protein interaction data tools: retrieving data from IntAct and most other databases using PSICQUIC service

Description

loadBioplex saves and/or loads the data stored on Bioplex website http://bioplex.hms.harvard.edu/downloadInteractions.php. Depends on the tsv file containing the following columns: Gene A Gene B Uniprot A Uniprot B Symbol A Symbol B p(Wrong) p(No Interaction) p(Interaction)

Usage

loadBioplex(dir = "./",
  url = "http://bioplex.hms.harvard.edu/data/BioPlex_2.3_interactionList.tsv",
  uniprot_id = T)

Arguments

dir	directory where to save/look for the local copy
uniprot_id	If TRUE uses UniprotKB accessions to identify interacting partners. If FALSE uses gene id (ENTREZ gene id) to identify interacting partners.

Value

loadBioplex saves loadBioplex data to a file, returns the object of class clean_MItab25

Author(s)

Vitalii Kleshchevnikov

Vitalii Kleshchevnikov

Examples

loadBioplex("./")

vitkl/MItools documentation built on May 29, 2019, 2:55 p.m.