Once you have performed object tracking, there are many tasks that you may wish to perform with that tracking data. This page lists a number of scripts that can be downloaded that perform various post-processing tasks on FAST's track output.

If you are more comfortable with programming languages other than Matlab or you are using FAST's stand-alone version, you will need to convert the tracking data structures into platform-specific structures. These scripts perform these conversions:

• matlab_to_df.R: Converts procTracks to an R dataframe.

Many datasets consist of mixtures of distinct populations of objects; these scripts allow you to automatically separate out and label these populations.

• splitFluoPopulationsTracks.m: Splits tracks into populations based on fluorescence levels in two channels.
• labelStartAndEndFluoCells.m: Splits tracks into populations based on fluorescence levels in a single channel from images taken at the start and end of a timelapse series. Permits population assignment with minimal phototoxicity.

Often, we are interested in the time at which an object performs a particular action. These scripts will help you to detect these 'events' and assign them to FAST's internal representation.

• labelThresholdEvents.m: Marks events when a specific track-associated variable drops above or below a specified threshold.
• labelUnusualEvents.m: Marks events when a specific track-associated variable moves far awy from its average, taking into account the typical fluctuations in its value.

These functions allow you to extract or adjust data associated with your tracks.

• meanIntInEllipse.m: Creates an elliptical mask based on the specified object's geometry and measures the intensity of an image within that mask.
• filterTracks.m: Allows you to filter tracks with features (e.g. length, fluorescence intensity) that exceed or fall below a user-specified value.
• extractTimePoints.m: Allows you to switch from track to slice-based representation of a specified data field.
• coarsegrainTrackData.m: Converts motility data from track-based view to coarsegrained flowfield view.

The division detection module updates tracks to encode a lineage tree. These functions help manipulate and navigate this tree.

• getLineageIndices: Allows you to get the indices and generation numbers of all descendants of a target cell.