calibrationStation: Calibration Station

In BaileyLabUM/biosensor: Analyzes raw data from biosensors, specifically, the Maverick M1 detection system from Genalyte, Inc

Description

Analyze series of runs on M1 and generate calibration curves for each target

Usage

calibrationStation(time1 = 51, time2 = 39, getLayoutFile = FALSE,
  calibrate = FALSE, filename = "groupNames_XPP.csv", loc = "plots",
  cntl = "thermal", chopRun = 0, fsr = FALSE, chkRings = FALSE,
  plotData = TRUE, celebrate = FALSE, netShifts = TRUE,
  uchannel = FALSE, party = TRUE)

Arguments

time1	a number specifying the later time for net shift calculations
time2	a number specifying the earlier time for net shift calculations
getLayoutFile	a logical value indicating if the chip layout file should be downloaded from Github
calibrate	a logical value indicating if data shoudl be fit to logistic function as calibration curve
filename	a string with the filename containing the chip layout
loc	a string with directory name to save plots and data files
cntl	a string indicating the target to be used for control; the default value is "thermal"; use "raw" if you do not want to use a control
chopRun	the numerical value on where to start the run, and the data will only be "chopped" (subsetted) if 'chopRun' > 0
fsr	a logical value indicating whether the data contains FSR shifts
chkRings	a logical value indicating if rings should be removed
plotData	a logical value indicating if data should be plotted, which will save a series of png files
celebrate	a logical value, set it to TRUE for to be alerted when your script has finished
netShifts	a logical value indicating if net shift values should be calculated and plotted
uchannel	a logical value indicating if experiment is a U-channel
party	a logical value that alerts you when your runs is done when TRUE

BaileyLabUM/biosensor documentation built on May 28, 2019, 11:36 a.m.