download.geo.dataset: Download dataset from GEO by accession ID and platform

In ProfessionalFarmer/loonR: Common function in bioinformatics analysis

Download dataset from GEO by accession ID and platform

Description

Download dataset from GEO by accession ID and platform

Usage

download.geo.dataset(
  geo.accession.id,
  platform = NULL,
  destdir = "~/GSE",
  platform.available = TRUE,
  normalizeBetweenArrays = FALSE,
  id.mapping = TRUE
)

Arguments

geo.accession.id	GEO Accession ID
platform	Platform
destdir	Default tempdir()
platform.available	If GLP platform not available
normalizeBetweenArrays	Default FALSE. If perform normlize between arrays. Check boxplot first
id.mapping	Default TRUE in order to select the maximum expression value if a gene has muiltiple probes

Value

list(expression, phenotype, probe.annotation)

ProfessionalFarmer/loonR documentation built on Oct. 9, 2024, 9:56 p.m.