read_lightcycler_1colour_raw: Reads raw text-format fluorescence data in 1 colour from...

In ewallace/tidyqpcr: Quantitative PCR Analysis with the Tidyverse

Reads raw text-format fluorescence data in 1 colour from Roche Lightcyclers

Description

This is the data from "export in text format" from the Lightcycler software. The other data format, .ixo, can be converted to .txt format by the Lightcycler software.

Usage

read_lightcycler_1colour_raw(
  filename,
  skip = 2,
  col_names = c("well", "sample_info", "program_no", "segment_no", "cycle", "time",
    "temperature", "fluor_raw"),
  col_types = "ccffinnn",
  ...
)

Arguments

filename	file name
skip	number of lines to skip, defaults to 2
col_names	names to give to columns
col_types	data types of columns
...	other arguments to pass to read_tsv, if needed

Details

This function is a thin wrapper around readr::read_tsv.

Value

tibble containing raw data, with default column names:

well: the well of the plate, e.g. A1

sample_info: this is the "Sample" field entered in lightcycler software, defaults to "Sample X"

program_no: the number of the cycler program, for 2-step PCR defaults to 1 = melt, 2 = amplify, 3 = melt.

segment_no: the number of the segment of the cycler program, e.g. hold/raise/lower temperature

cycle: the cycle number, for programs with repeated cycles (i.e. amplification)

time: the time of fluorescence reading acquisition (in what units???)

temperature: the temperature of the block at fluorescence acquisition

fluor_raw: the raw fluorescence reading in "arbitrary units". For SYBR safe, this would be 483nm excitation, 533nm emission.

See Also

read_lightcycler_1colour_cq

Examples

read_lightcycler_1colour_raw(system.file("extdata/Edward_qPCR_Nrd1_calibration_2019-02-02.txt.gz", 
                                                 package = "tidyqpcr"))

ewallace/tidyqpcr documentation built on June 5, 2024, 10:04 a.m.