Motion Trajectory Analysis
Compute Summary Statistics of Subtracks
Find Distances and Angles for all Pairs of Tracks
Find Distances and Angles for all Pairs of Steps
Angle Analysis
Angle between Two Tracks
Angle between Two Steps
Angle with a Reference Direction
Angle with a Reference Plane
Angle with a Reference Point
Compute a Measure on a Track in a Staggered Fashion
Convert Tracks to Data Frame
Convert from Tracks to List
Convert from Data Frame to Tracks
Simulate a 3D Cell Track Using the Beauchemin Model
Simulate Tracks via Bootstrapping of Speed and Turning Angle from a Re...
Bounding Box of a Tracks Object
Simulate an Uncorrelated Random Walk
Find Pairs of Tracks
celltrackR: Quantitative analysis of motion.
Open the package cheat sheet
Cluster Tracks
Minimum Distance between Two Cells
Distance between Two Steps
Distance to a Reference Plane
Distance to a Reference Point
Filter Tracks
Get Track Metadata from ImmuneMap
Obtaining A Feature Matrix
Test Unbiasedness of Motion
Interpolate Track Positions
Length of Longest Track
Normalize a Measure to Track Duration
Normalize Tracks
Distance between pairs of tracks at every timepoint
Plot Tracks in 2D
Plot Tracks in 3D
Bivariate Scatterplot of Track Measures
Get Track Prefixes
Extract Spatial Dimensions
Read Tracks from Text File
Read tracks from ImmuneMap
Process Tracks Containing Gaps
Get Single Steps Starting at a Specific Time from a Subset of Tracks
Select Tracks by Measure Values
Generate Tracks by Simulation
Sort Track Positions by Time
Split Track into Multiple Tracks
Staggered Version of a Function
Find Pairs of Steps Occurring at the Same Time
Subsample Track by Constant Factor
Decompose Track(s) into Subtracks
Extract Subtracks Starting at a Specific Time
Find All Unique Time Points in a Track Dataset
Compute Time Step of Tracks
Dimensionality Reduction on Track Features
Track Measures
Tracks Objects
Angle Between Two Vectors
Create Track Object from Single Track
Methods for analyzing (cell) motion in two or three dimensions. Available measures include displacement, confinement ratio, autocorrelation, straightness, turning angle, and fractal dimension. Measures can be applied to entire tracks, steps, or subtracks with varying length. While the methodology has been developed for cell trajectory analysis, it is applicable to anything that moves including animals, people, or vehicles. Some of the methodology implemented in this packages was described by: Beauchemin, Dixit, and Perelson (2007) <doi:10.4049/jimmunol.178.9.5505>, Beltman, Maree, and de Boer (2009) <doi:10.1038/nri2638>, Gneiting and Schlather (2004) <doi:10.1137/S0036144501394387>, Mokhtari, Mech, Zitzmann, Hasenberg, Gunzer, and Figge (2013) <doi:10.1371/journal.pone.0080808>, Moreau, Lemaitre, Terriac, Azar, Piel, Lennon-Dumenil, and Bousso (2012) <doi:10.1016/j.immuni.2012.05.014>, Textor, Peixoto, Henrickson, Sinn, von Andrian, and Westermann (2011) <doi:10.1073/pnas.1102288108>, Textor, Sinn, and de Boer (2013) <doi:10.1186/1471-2105-14-S6-S10>, Textor, Henrickson, Mandl, von Andrian, Westermann, de Boer, and Beltman (2014) <doi:10.1371/journal.pcbi.1003752>.