assignDefaultMthds: Assign default processing methods

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

Assign default processing methods

Description

Function to assign default processing method to asid in input

Usage

assignDefaultMthds(asid, params = NULL)

Arguments

asid	Integer, the asid value(s) to which assign the default methods
params	Parameters for level 2, 3, and 5 processing

Details

This function loads all components and endpoints for the given asid(s) in the database, and assigns a default set of processing methods to them.

This funciton will overwrite any previously assigned methods.

By default, each assay will receive 'none' at level 2. Level 3 data will receive, in order, 'bval.pmi' (39), 'resp.fc' (9), 'resp.log2' (7), and for endpoints with "down" analysis direction, 'resp.multneg1' (6).

Value

None

Examples

## Prepare for analysis before QC + process data
assignDefaultMthds(asid = 1L)

## Process data
gtoxRun(asid = 1L, slvl = 1, elvl = 6, mc.cores = 2)

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