Man pages for federicomarini/flowcatchR-release
Tools to analyze in vivo microscopy imaging data focused on tracking flowing blood cells.
| add.contours | Add object contours to a 'Frames' object |
| addParticles | Combines the information from a raw 'Frames' object and the... |
| axesInfo | Info on the dimensions of the FOV |
| candidate.platelets | A sample 'ParticleSet' object |
| channel.Frames | Channel extraction for 'objects' |
| computeMSD | Calculates the Mean Squared Displacement for a trajectory |
| crop.Frames | Cut borders of a 'Frames' object |
| export.Frames | Exports a 'Frames' object |
| export.particles | Exports a 'ParticleSet' object |
| extractKinematics.traj | Calculate a set of kinematics parameters from a single... |
| flowcatchR | flowcatchR: analyzing time-lapse microscopy imaging, from... |
| Frames | Constructor for a 'Frames' object |
| Frames-class | Frames class |
| initialize.LinkedParticleSet | Initialize a 'ParticleSet' object for subsequent... |
| inspect.Frames | Explore the frames of a 'Frames' |
| kinematics | Calculate a set of kinematics parameter from a... |
| KinematicsFeatures-class | KinematicsFeatures class |
| KinematicsFeaturesSet-class | KinematicsFeaturesSet |
| length.Frames | Compute the length of render frames in a 'Frames' object |
| LinkedParticleSet-class | LinkedParticleSet class |
| link.particles | Links a 'ParticleSet' object |
| matchTrajToParticles | Match trajectories to related particles. |
| MesenteriumSubset | A sample 'Frames' object |
| normalizeFrames | Normalize the values of a 'Frames' object |
| particles | Extracts particles from the images of a 'Frames' object. |
| ParticleSet-class | ParticleSet class |
| penaltyFunctionGenerator | Generate a penalty function |
| plot2D.TrajectorySet | 2D projection of a 'TrajectorySet' object |
| plot.TrajectorySet | 3D representation of a 'TrajectorySet' object |
| preprocess.Frames | Preprocessing function for 'Frames' objects |
| read.Frames | Constructor for a 'Frames' object |
| read.particles | Constructor for a 'ParticleSet' object |
| repmat | Function equivalent for MATLAB's repmat - Replicate and tile... |
| rotate.Frames | Rotates all images in a 'Frames' object |
| select.Frames | Extracts subsets of frames from a 'Frames' object |
| select.particles | Performs filtering on a 'ParticleSet' object |
| shinyFlow | Shiny application for exploring the features and parameters... |
| show-Frames-method | Display conveniently a 'Frames' object |
| show-KinematicsFeatures-method | Displaying conveniently a 'KinematicsFeatures' object |
| show-KinematicsFeaturesSet-method | Display conveniently a 'KinematicsFeatureSet' object |
| show-LinkedParticleSet-method | Display conveniently a 'LinkedParticleSet' object |
| show-ParticleSet-method | Display conveniently a 'ParticleSet' object |
| show-TrajectorySet-method | Display conveniently a 'TrajectorySet' object |
| snap | Snap the features of the closest particle identified |
| toCartesianCoords | Converts polar coordinates to cartesian coordinates |
| toPolarCoords | Converts cartesian coordinates to polar coordinates |
| trajectories | Generate trajectories |
| TrajectorySet-class | TrajectorySet class |
