df2dpcr: Convert data.frame to dpcr object

In michbur/dpcR: Digital PCR Analysis

Convert data.frame to dpcr object

Description

Converts data.frame object to to adpcr or dpcr object. The resulting object will have "tnp" type.

Usage

df2dpcr(df)

Arguments

df	data frame with specified column names. See Details.

Details

The data frame must have REDF structure. It means that data must contain following columns with exactly specified names:

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.

There are also one optional column:

panel_id

indices of panels

If the additional column is present, the resulting object has adpcr type.

Value

An object of adpcr or dpcr type, depends on the presence of additional column with panel indices (see Details).

Author(s)

Michal Burdukiewcz, Stefan Roediger

See Also

Flexibly create dpcr objects: create_dpcr Inverse function: dpcr2df

Examples

dat <- data.frame(
  experiment = factor(rep(paste0("Experiment", 1L:2), 3)),
  replicate = c(1, 1, 2, 2, 3, 3),
  assay = "Assay1",
  k = c(55, 121, 43, 150, 70, 131),
  n = 765,
  v = 1,
  uv = 0
)
df2dpcr(dat)

michbur/dpcR documentation built on Nov. 17, 2022, 5:02 a.m.