readSampleSheet.NoCT: readSampleSheet.NoCT

In sccallahan/WARPqpcr: Web App and R Package for qPCR

Description

Functions as readSampleSheet when the Cq column contains non-numerics or non-NA values. Will convert all non-numerics to NA. Saves a converted version of the file with an "_NAconverted.csv" suffix.

Usage

readSampleSheet.NoCT(file)

Arguments

file	Tab-delimted file containing qPCR data

Details

readSampleSheet will fail if any non-numeric values are in the Cq columns, or if every sample does not have the same number of replicates for each gene. This function will convert all non-numerics to NA, allowing the file to be read into R and further analysis to be performed.

Biological replicates MUST be given unique identifiers, else they will be treated as technical replicates. For example, if an experiment has 2 biological replicates for a wildtype sample, they should be entered as "WT_1" and "WT_2". Entering them both as "WT" will result in them being treated as technical replicates of the same sample. Multiple technial replicates of biological replicates should entered with the same names (e.g. "WT_1", "WT_1", "WT_2", "WT_2" would be 2 technical replicates of biological replicate 1 and 2 technical replicates of biological replicate 2).

Value

A qPCRBatch object.

sccallahan/WARPqpcr documentation built on March 1, 2020, 1:23 a.m.