# Motion Trajectory Analysis

## Documentation for package ‘celltrackR’ version 1.2.0

- DESCRIPTION file.
- User guides, package vignettes and other documentation.
- Package NEWS.

## Help Pages

celltrackR-package | celltrackR: Quantitative analysis of motion.
aggregate | Compute Summary Statistics of Subtracks
aggregate.tracks | Compute Summary Statistics of Subtracks
analyzeCellPairs | Find Distances and Angles for all Pairs of Tracks
analyzeStepPairs | Find Distances and Angles for all Pairs of Steps
AngleAnalysis | Angle Analysis
angleCells | Angle between Two Tracks
angleSteps | Angle between Two Steps
angleToDir | Angle with a Reference Direction
angleToPlane | Angle with a Reference Plane
angleToPoint | Angle with a Reference Point
applyStaggered | Compute a Measure on a Track in a Staggered Fashion
as.data.frame.tracks | Convert Tracks to Data Frame
as.list.tracks | Convert from Tracks to List
as.tracks | Tracks Objects
as.tracks.data.frame | Convert from Data Frame to Tracks
as.tracks.list | Tracks Objects
asphericity | Track Measures
BCells | Two-Photon Data: B Cells in a Lymph Node
beaucheminTrack | Simulate a 3D Cell Track Using the Beauchemin Model
bootstrapTrack | Simulate Tracks via Bootstrapping of Speed and Turning Angle from a Real Track Dataset
boundingBox | Bounding Box of a Tracks Object
brownianTrack | Simulate an Uncorrelated Random Walk
c.tracks | Tracks Objects
cellPairs | Find Pairs of Tracks
celltrackR | celltrackR: Quantitative analysis of motion.
cheatsheet | Open the package cheat sheet
clusterTracks | Cluster Tracks
displacement | Track Measures
displacementRatio | Track Measures
displacementVector | Track Measures
distanceCells | Minimum Distance between Two Cells
distanceSteps | Distance between Two Steps
distanceToPlane | Distance to a Reference Plane
distanceToPoint | Distance to a Reference Point
duration | Track Measures
filterTracks | Filter Tracks
fractalDimension | Track Measures
get.immap.metadata | Get Track Metadata from ImmuneMap
get.immap.tracks | Read tracks from ImmuneMap
getFeatureMatrix | Obtaining A Feature Matrix
hotellingsTest | Test Unbiasedness of Motion
hurstExponent | Track Measures
interpolateTrack | Interpolate Track Positions
is.tracks | Tracks Objects
maxDisplacement | Track Measures
maxTrackLength | Length of Longest Track
meanTurningAngle | Track Measures
Neutrophils | Two-Photon Data: Neutrophils responding to an infection in the ear
normalizeToDuration | Normalize a Measure to Track Duration
normalizeTracks | Normalize Tracks
outreachRatio | Track Measures
overallAngle | Track Measures
overallDot | Track Measures
overallNormDot | Track Measures
pairsByTime | Distance between pairs of tracks at every timepoint
parse.immap.json | Read tracks from ImmuneMap
plot.tracks | Plot Tracks in 2D
plot3d | Plot Tracks in 3D
plotTrackMeasures | Bivariate Scatterplot of Track Measures
prefixes | Get Track Prefixes
projectDimensions | Extract Spatial Dimensions
read.immap.json | Read tracks from ImmuneMap
read.tracks.csv | Read Tracks from Text File
ReadImmuneMap | Read tracks from ImmuneMap
repairGaps | Process Tracks Containing Gaps
selectSteps | Get Single Steps Starting at a Specific Time from a Subset of Tracks
selectTracks | Select Tracks by Measure Values
simulateTracks | Generate Tracks by Simulation
sort.tracks | Sort Track Positions by Time
speed | Track Measures
splitTrack | Split Track into Multiple Tracks
squareDisplacement | Track Measures
staggered | Staggered Version of a Function
stepPairs | Find Pairs of Steps Occurring at the Same Time
straightness | Track Measures
subsample | Subsample Track by Constant Factor
subtracks | Decompose Track(s) into Subtracks
subtracksByTime | Extract Subtracks Starting at a Specific Time
TCells | Two-Photon Data: T Cells in a Lymph Node
timePoints | Find All Unique Time Points in a Track Dataset
timeStep | Compute Time Step of Tracks
trackFeatureMap | Dimensionality Reduction on Track Features
trackLength | Track Measures
TrackMeasures | Track Measures
tracks | Tracks Objects
vecAngle | Angle Between Two Vectors
wrapTrack | Create Track Object from Single Track