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healthyControlsPresenceChecker

Dowloads A Gene Expression Dataset From GEO And Checks If It Contains Data Of Healthy Controls Or Not


Bioconductor version: Release (3.18)

A function that reads in the GEO accession code of a gene expression dataset, retrieves its data from GEO, and checks if data of healthy controls are present in the dataset. It returns true if healthy controls data are found, and false otherwise. GEO: Gene Expression Omnibus. ID: identifier code. The GEO datasets are downloaded from the URL .

Author: Davide Chicco [aut, cre]

Maintainer: Davide Chicco <davide.chicco at gmail.com>

Citation (from within R, enter citation("healthyControlsPresenceChecker")):

Installation

To install this package, start R (version "4.3") and enter:


if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("healthyControlsPresenceChecker")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("healthyControlsPresenceChecker")
healthyControlsPresenceChecker vignette HTML R Script
Reference Manual PDF
NEWS Text

Details

biocViews ExperimentData, ExpressionData, GEO, RepositoryData
Version 1.6.0
License GPL-3
Depends R (>= 4.0.0)
Imports xml2, GEOquery, geneExpressionFromGEO, magrittr
System Requirements
URL https://github.com/davidechicco/healthyControlsPresenceChecker
Bug Reports https://github.com/davidechicco/healthyControlsPresenceChecker/issues
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Suggests RUnit, BiocGenerics, markdown, BiocStyle, knitr, rmarkdown
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Package Archives

Follow Installation instructions to use this package in your R session.

Source Package healthyControlsPresenceChecker_1.6.0.tar.gz
Windows Binary
macOS Binary (x86_64)
macOS Binary (arm64)
Source Repository git clone https://git.bioconductor.org/packages/healthyControlsPresenceChecker
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/healthyControlsPresenceChecker
Package Short Url https://bioconductor.org/packages/healthyControlsPresenceChecker/
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