Tools for Storage and Retrieval of Gene Expession Data

Documentation for package ‘compendiumdb’ version 0.1.0

compendiumdb-package	A database and R package for storing and analyzing gene expression data
compendiumdb	A database and R package for storing and analyzing gene expression data
connectDatabase	Create connection with the MySQL compendium database
createESET	Create a Bioconductor ExpressionSet
downloadGEOdata	Download a GSE from GEO
GDSforGSE	Retrieve the GDS ID for a given GSE ID
GSEforGPL	Retrieve the GSE ID for a given GPL ID
GSEinDB	Check presence of GSEs in compendium database
GSMdescriptions	List sample annotation of samples in an experiment
loadDatabaseSchema	Load the compendium database schema
loadDataToCompendium	Load GSE into the compendium database
removeGSE	Remove series record from compendium database
tagExperiment	Tag an experiment with text labels
updatePhenoData	Update the phenotypic data of a set of samples