GPrank (version 0.1.4)

createDatabase: Building SQLite database

Description

Function for building an SQLite database for displaying GP profiles of the selected items on a browser, enabling to rank them according to their Bayes factors and other provided parameters. For details of using tigreBrowser, please refer to https://github.com/PROBIC/tigreBrowser and. https://github.com/PROBIC/tigreBrowserWriter.

Usage

createDatabase(dbInfo, figs)

Arguments

dbInfo

List which contains the required information of the items that will be included in the database. Three arguments must be specified in the dbInfo:

• database_name: Name of the database.

• database_params: List of parameters which will be included in the database.

• identifiers: Identifiers for the items which will be displayed on the browser. These identifiers should appear in the begining of the corresponding figure names, followed by an underscore and the type of the plot. For example, for identifier "geneA", multiple figures may be named as "geneA_gene.png", "geneA_abstr.png", and "geneA_reltr.png".

figs

Character vector containing the figure names.

Value

Generates an SQLite database named "$database_name.sqlite".

Examples

# NOT RUN {
BF=c(3,10,2)
FoldChange=c(0.5,3,5)
dbParams=list("BF"=BF,"Fold change"=FoldChange)
identifiers=c("geneA","geneB","geneC")
dbInfo=list(database_name="testdb","database_params"=dbParams,"identifiers"=identifiers)
figs=c("geneA_gene.png","geneA_abstr.png","geneA_reltr.png","geneB_gene.png",
"geneB_abstr.png","geneB_reltr.png","geneC_gene.png","geneC_abstr.png","geneC_reltr.png")
for (i in seq(1,9)) {
	examplefig=figs[i] 
     png(examplefig)
     plot(c(0, 1), c(0, 1))
     dev.off()
}
createDatabase(dbInfo,figs)

# }