Correct distance and time of imported TrackMate data.

If the TrackMate data is in pixels and/or frames, the data frame can be converted with this function.

Usage

correctTrackMateData(
  dataList,
  xyscalar = 1,
  tscalar = 1,
  xyunit = NULL,
  tunit = NULL
)

Arguments

dataList

a list of a data frame (of track data) and a calibration data frame (from TrackMate XML)

xyscalar

numeric multiplier to correct pixel size of original movie. Assumes isotropic scaling, i.e. pixel height = pixel width

tscalar

numeric multiplier to correct frame interval of original movie. Frame interval of tracked data.

xyunit

string to describe spatial units

tunit

string to describe temporal unit

Value

list of two data frames

Examples

xmlPath <- system.file("extdata", "ExampleTrackMateData.xml", package="TrackMateR")
tmObj <- readTrackMateXML(XMLpath = xmlPath)
#> Units are:  1 pixel and 0.07002736 s 
#> Spatial units are in pixels - consider transforming to real units
#> Extracting spot data...
#> Matching track data...
#> Calculating distances...
# in the case where pixel size is 0.03 um and original data is 1 pixel, xyscalar = 0.03
tmObj <- correctTrackMateData(dataList = tmObj, xyscalar = 0.03)
#> Correcting XY scale.