prepareDatForDB: Assign default processing methods

In pmpsa-hpc/GladiaTOX: R Package for Processing High Content Screening data

Assign default processing methods

Description

This function is a wrapper to ease the creation of the dataframe containing data and metadata to be loaded in the database

Usage

prepareDatForDB(asid, dat)

Arguments

asid	Integer, the asid value(s) to assign the default methods to
dat	Data.table containing metadata and data to load in DB

Details

This function formats a dat table to be loaded in DB

Value

Data table with data and metadata to store in database

Examples

## Not run: 
## Load sample data
load(system.file("extdata", "data_for_vignette.rda", package="GladiaTOX"))

# Build assay table
assay <- buildAssayTab(plate, chnmap)

## Set study parameters
std.nm <- "SampleStudy" # study name
phs.nm <- "PhaseII" # study phase

## Delete previously loaded study data
asid = gtoxLoadAsid(fld=c("asnm", "asph"), val=list(std.nm, phs.nm))$asid
if(length(asid)>0){ deleteStudy(asid=asid) }

## Load annotation in gtoxDB
loadAnnot(plate, assay, NULL)

## Get the created study ID
asid = gtoxLoadAsid(fld = c("asnm", "asph"), val = list(std.nm, phs.nm))$asid

## Prepare and load data
dat <- prepareDatForDB(asid, dat)

## End(Not run)

pmpsa-hpc/GladiaTOX documentation built on Sept. 1, 2023, 5:52 p.m.