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compendiumdb (version 1.0.3)

Tools for Retrieval and Storage of Functional Genomics Data

Description

Package for the systematic retrieval and storage of functional genomics data via a MySQL database.

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Version

Install

install.packages('compendiumdb')

Monthly Downloads

26

Version

1.0.3

License

GPL (>= 2)

Maintainer

Umesh Nandal

Last Published

October 12th, 2015

Functions in compendiumdb (1.0.3)

downloadGEOdata

Download a GSE record from GEO
createESET

Create a Bioconductor ExpressionSet
compendiumdb-package

Tools for Retrieval and Storage of Functional Genomics Data
tagExperiment

Tag an experiment with text labels
GSEforGPL

Retrieve information about a GSE for a given GPL
GSEinDB

Retrieve information about a GSE loaded in the compendium database
checkUpdates

Check whether GSE records have been updated on GEO
GDSforGSE

Retrieve information about a GDS for a given GSE
loadDatabaseSchema

Load the compendium database schema
updatePhenoData

Update the phenotypic data of a GSE record
loadDataToCompendium

Load GSE into the compendium database
connectDatabase

Create connection with the MySQL compendium database
removeGSE

Remove a GSE from the compendium database
GSMdescriptions

List sample annotation of samples for a given GSE