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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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Install
install.packages('compendiumdb')
Monthly Downloads
50
Version
1.0.3
License
GPL (>= 2)
Maintainer
Umesh Nandal
Last Published
October 12th, 2015
Functions in compendiumdb (1.0.3)
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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