Contents

 Specialized analyses for FMAToolbox.

 Firing map and curves, etc. (place cells, grid cells, head direction cells).

   FiringCurve            - Compute spatial firing curve (e.g. for a head direction cell).
   FiringMap              - Compute spatial firing map (e.g. for a place cell).
   PhaseCurve             - Compute phase curve.
   PhaseMap               - Compute phase map.
   PhaseMango             - Compute phase as a function of spike rate and acceleration.
   DefineZone             - Define a restricted zone to which analyses can subsequently be circumscribed.
   IsInZone               - Test when the animal is in a given zone.
   FieldShift             - Estimate firing field shifts between two conditions.
   NormalizeFields        - Normalize one or more firing fields in space and rate.
   ReconstructPosition    - Bayesian reconstruction of positions from spike trains.
   TestRemapping          - Test if firing fields remap (or shift) between two conditions.
   TestSkewness           - Test if firing field skewness changes between two conditions.
   CompareDistributions   - Compare two N-dimensional distributions (e.g. prospective place fields).

 General purpose mapping.

   Map                    - Map Z on (X,Y) where X, Y and Z are time-varying variables (samples).
   MapStats               - Compute statistics for a map Z = f(X,Y), or a curve Z = f(X).

 Evoked potentials, peri-event time histograms, rasters.

   Sync                   - Make sample timestamps relative to synchronizing events.
   SyncHist               - Compute a histogram on event-synchronized samples (e.g. a PSTH).
   SyncMap                - Create a map from successive event-synchronized data.
   PETHTransition         - Find a transition point in a peri-event time histogram.

 Local field potentials.

   FilterLFP              - Filter the local field potentials, e.g. in the theta band.
   Phase                  - Compute instantaneous phase in LFP.
   TimeToPhase            - Resample signal as a function of unwrapped phase.
   MTCoherence            - Compute LFP coherence by multi-taper estimation.
   MTCoherogram           - Compute LFP coherogram by multi-taper estimation.
   MTSpectrum             - Compute LFP spectrum by multi-taper estimation.
   MTSpectrogram          - Compute LFP spectrogram by multi-taper estimation.
   SpectrogramBands       - Determine running power in physiological bands.
   CoherenceBands         - Determine running coherence in physiological bands.
   CSD                    - Compute current source density.
   FindDeltaWaves         - Find cortical delta waves (1-4Hz waves).
   FindRipples            - Find hippocampal ripples (100-200Hz oscillations).
   FindSpindles           - Find thalamo-cortical spindles (9-17Hz oscillations).
   RippleStats            - Compute descriptive stats for ripples (100~200Hz oscillations).
   TuneArtefactTimes      - Fine-tune artefact (e.g. stimulation) times.
   RemoveArtefacts        - Remove artefacts from local field potentials.
   FieldPSP               - Measure field EPSPs (waveforms, slope, amplitude) across time.

 Spike trains.

   Frequency              - Compute instantaneous frequency for a spike train.
   CCG                    - Compute multiple cross- and auto-correlograms.
   CCGParameters          - Reformat time series for CCG computation.
   FitCCG                 - Fit dampened sinewave to the cross-correlogram of a pair of theta-modulated cells.
   CofiringCoefficient    - Compute the cofiring coefficient between two sets of intervals.
   ActivityTemplates      - Compute activity templates from PCA of spike trains.
   ReactivationStrength   - Assess reactivation strength of cell assemblies.
   CountSpikesPerCycle    - Count number of spikes per LFP cycle.
   CV                     - Compute coefficient of variation for a point process.
   FindSpikeTrains        - Split long spike trains into 'active' periods.
   FunctionalClustering   - Determine spike train similarity tree using FCA analysis.
   IsolationDistance      - Determine the isolation quality for one or more clusters.
   MTPointSpectrogram     - Compute point process spectrogram by multi-taper estimation.
   MTPointSpectrum        - Compute point process spectrum by multi-taper estimation.
   PhasePrecession        - Compute spike phase precession.
   SelectSpikes           - Discriminate bursts vs single spikes.
   ShortTimeCCG           - Time-varying auto/cross-correlograms of point processes.
   ThresholdSpikes        - Post-hoc threshold correction for spike detection.
   GenerateSpikeTrain     - Generate spike train using a leaky integrate and fire neuron model.

 Behaviour

   AngularVelocity        - Compute instantaneous angular velocity.
   LinearVelocity         - Compute instantaneous linear velocity.
   QuietPeriods           - Find extended periods of immobility.
   BrainStates            - Determine brain state using LFP, EMG and quiescence.
   Distance               - Compute instantaneous distance to a reference point.
   RadialMaze             - Compute simple statistics for the 8-arm radial maze task.
   RadialMazeTurns        - Compute distribution of successive turn angles in a radial maze.

 Data Overview

   SurveyFiringMaps       - Compute and plot firing maps for all subsessions.
   SurveyPhasePrecession  - Compute and plot phase precession plots for all subsessions.
   SurveyTuningCurves     - Compute and plot tuning curves for all subsessions.
   SurveyCCG              - Compute and plot cross-correlograms (CCGs) for all subsessions.