dpcR (version 0.5)

read_redf: Read digital PCR raw data

Description

Reads REDF (Raw Exchange Digital PCR format) data.

Usage

read_redf(input, ext = NULL)

Arguments

input

name of the input file (character) or input object (data.frame).

ext

extension of the file ().

Value

An object of '>adpcr or '>dpcr type, depends on the value of adpcr parameter.

Details

REDF (Raw Exchange Digital PCR format) data is preferably a .csv file with following columns:

experiment

names of experiments

replicate

indices of replicates

assay

names of assays

k

number of positive partitions

n

total number of partitions

v

volume of partition (nL)

uv

uncertainty of partition's volume (nL)

threshold

partitions with k equal or higher than threshold are treated as positve.

panel_id

indices of panels

Column panel_id should be specified only in case of array-based dPCR.