getGeneInfo-methods: description of function getEnsembl

In stela2502/BioData: The package allows to annotate a numeric data.table with col and row data

Description

getGeneInfo is a powerful function, that uses the annotation packages RSQLite tables to select information.

Usage

getGeneInfo(
  x,
  species = "mMus",
  from,
  from_tab = NULL,
  what = "symbol",
  what_tab = NULL,
  tab.res = FALSE
)

Arguments

x	the query string or a vector of query strings
species	either 'mMus', 'Hs' or a AnnotationDbi object
from	the column that corresponds to the x values
from_tab	if the column is defined in more thanone table the specififc table name
what	which column do you want to get (only one)
what_tab	analogue to the from_tab the table name containing the colmn if more than one table contains the info
tab_res	return all results as table (to check the results; default = FALSE)

Value

A vector of ids

Examples

CellCycle_gene_symbols <- getGeneInfo(
			"GO:0007049", species = 'mMus', from= 'go_id', from_tab='go' 
)
CellCycle_ensembl_ids <- getGeneInfo(
			"GO:0007049", species = "Hs", from = "go_id", from_tab = "go", 
			what='ensembl_id', what_tab="ensembl")
Complement_and_coagulation_cascades_gene_symbols <- getGeneInfo(
			'04610', species = 'Hs', from = 'path_id', what= 'symbol' )

stela2502/BioData documentation built on Feb. 23, 2022, 5:47 a.m.