psygenetGene-methods: Query PsyGeNET for given gene(s) and generates an...

In aGutierrezSacristan/psygenet2r: psygenet2r - An R package for querying PsyGeNET and to perform comorbidity studies in psychiatric disorders

Query PsyGeNET for given gene(s) and generates an DataGeNET.Psy

Description

Given the name of one or multiple gene and retrives their information from PsyGeNET and creates an object of type DataGeNET.Psy.

Usage

psygenetGene(gene, database = "ALL", evidenceIndex = c(">", 0),
  verbose = FALSE, warnings = TRUE)

Arguments

gene	Name or vector of names (that can be both code or symbol) to specific genes from PsyGeNET. The genes non existing in PsyGeNET will be removed from the output.
database	Name of the database that will be queried. It can take the values 'psycur15' to use data validated by experts for first release of PsyGeNET; 'psycur16' to use data validated by experts for second release of PsyGeNET; or 'ALL' to use both databases. Default 'ALL'.
evidenceIndex	A vector with two elements: 1) character with greather '>' or with lower '<' meaing greather or equal and lower or equal; 2) the evidence index cut-off to be compared. By default: c('>', 0).
verbose	By default FALSE. Change it to TRUE to get a on-time log from the function.
warnings	By default TRUE. Change it to FALSE to not see the warnings.

Value

An object of class DataGeNET.Psy

Note

The "Evidence Index" is gotten from PsyGeNET. For more information about it and its calculation, pease visit psygenet.org.

Examples

d.alch <- psygenetGene( "ALDH2", "ALL" )

aGutierrezSacristan/psygenet2r documentation built on Jan. 18, 2024, 4:06 a.m.