DeSciDe (version 1.0.2)

search_string_db: Search STRING Database

Description

Search the STRING database for protein interactions.

Usage

search_string_db(
  genes_list,
  species = 9606,
  network_type = "full",
  score_threshold = 400
)

Value

A list containing the following elements:

string_results

A data frame with STRING interaction metrics.

string_db

The STRINGdb object used.

string_ids

The STRING IDs for the input genes.

Arguments

genes_list

A list of gene IDs.

species

The NCBI taxon ID of the species. Defaults to 9606 (Homo sapiens).

network_type

The type of network to use, either "full" or "physical". Defaults to "full".

score_threshold

The minimum score threshold for string interactions. Defaults to 400.

Examples

if (FALSE) {
library(STRINGdb)
genes <- c("TP53", "BRCA1")
results <- search_string_db(genes)
print(results)
}