get_calibration: Get fluorescence calibration curve parameters

In ucl-cssb/flopr: A package for the normalisation and calibration of flow cytometry and plate reader spectrophotometry data

Get fluorescence calibration curve parameters

Description

Get fluorescence calibration curve parameters

Usage

get_calibration(bead_file, flu_channels, mef_peaks, manual_peaks, bead_dens_bw)

Arguments

bead_file	path to beads .fcs file.
flu_channels	a vector of strings of the fluorescence channels to keep in the processed data and plotting. Defaults to "BL1-H".
mef_peaks	a list of lists in the form list(list(channel="BL1-H", peaks=c(0, 200, ...) of MEF fluorescence values for the calibration beads. Default values for BL1-H and YL2-H.
manual_peaks	if bead peaks are not being found by the EM algorithm, one can manually specify the positions of the bead peaks (on a log10 scale). A list of lists in the form list(list(channel="BL1-H", peaks=c(2.1, 2.8, ...) of log10 fluorescence values for the calibration beads.
bead_dens_bw	the bandwidth for the kernel density of the bead peak data. Default = 0.025. Increase if erroneous peaks are being found, decrease if not enough peaks are found.

ucl-cssb/flopr documentation built on Jan. 27, 2024, 11:49 a.m.