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dpcR (version 0.6)

read_redf: Read digital PCR raw data

Description

Reads REDF (Raw Exchange Digital PCR format) data.

Usage

read_redf(input, ext = NULL)

Value

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

Arguments

input

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

ext

extension of the file ().

Author

Michal Burdukiewcz, Stefan Roediger

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.