fixMSD: Mean Square Displacement

In ocbe-uio/cellmigRation: Track Cells, Analyze Cell Trajectories and Compute Migration Statistics

Description

This function is a part of the MSD function, which computes the mean square displacements across several sequential time intervals.

Usage

fixMSD(
  Object,
  Step,
  SlopePlot,
  AllSlopesPlot,
  FurthPlot,
  AllFurthPlot,
  sLAG,
  ffLAG,
  color,
  export,
  ExpName,
  new.fld
)

Arguments

Step	A numeric value of the number of trajectory steps.
SlopePlot	A logical vector that allows generating individual plots showing the slope of the mean square displacement of the movement of individual cells. Default is TRUE.
AllSlopesPlot	A logical vector that allows generating a plot showing the slope of the mean square displacement of the movement of all cells. Default is TRUE.
FurthPlot	A logical vector that allows generating individual plots fitting the Furth formula using generalized regression by the Nelder–Mead method simplex method per cell. Default is TRUE.
AllFurthPlot	A logical vector that allows generating a plot fitting the Furth formula using generalized regression by the Nelder–Mead method simplex method for all cells. Default is TRUE.
sLAG	A numeric value to be used to get the number of lags for the slope fitting. Default is 0.25, which represents 25 percent of the steps.
ffLAG	A numeric value to be used to get the number of lags for the Furth formula fitting. Default is 0.25, which represents 25 percent of the steps.
color	A vector of colors that will be used for the plots
export	if 'TRUE' (default), exports function output
ExpName	String, name of the experiment
new.fld	path to the folder where to save files
object	CellMig class object, which is a list of data frames resulted from the PreProcessing.

Value

A data frame named "MSDResultsTable".

Author(s)

Salim Ghannoum [e-mail]

References

https://www.data-pulse.com/dev_site/cellmigration/

Examples

cellmigRation:::fixMSD(1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1)

ocbe-uio/cellmigRation documentation built on Dec. 16, 2021, 10:59 p.m.