getPathwayFromAnalyte: Function that search analytes (gene or compounds) or a list...

In Mathelab/RaMP-DB: RaMP (Relational Database of Metabolomic Pathways)

Description

Function that search analytes (gene or compounds) or a list of analytes and returns associated pathways

Usage

getPathwayFromAnalyte(analytes = NULL, find_synonym = FALSE,
  conpass = NULL, host = "localhost", dbname = "ramp",
  username = "root", NameOrIds = "ids")

Arguments

analytes	a vector of analytes (genes or metabolites) that need to be searched
find_synonym	find all synonyms or just return same synonym (T/F)
conpass	password for database access (string)
host	host name for database access (default is "localhost")
dbname	name of the mysql database (default is "ramp")
username	username for database access (default is "root")
NameOrIds	whether input is "names" or "ids" (default is "ids")

Value

a list contains all metabolites as name and pathway inside.

Examples

## Not run: 
mypath <- getPathwayFromAnalyte(analytes=c("2-hydroxyglutarate","glutamate"), conpass="mypassword")

## End(Not run)

Mathelab/RaMP-DB documentation built on April 24, 2021, 3:11 p.m.