RasterVis

About

RasterVis is a D3-based visualization tool for quickly viewing, grouping and summarizing spike rasters for many neurons.

This tool allows you to: * Generate and change between rasters for many neurons * Quickly view rasters aligned to experimental trial events. * Add Gaussian-smoothed peristimulus time kernel density estimates with arbitrary smoothing. * Group spikes based on experimental factors.

Example

See an example here: https://neurophysvis.github.io/RasterVis/public/

Installation

To run RasterVis locally, you need to install the dependencies and set up a local web server.

To install the dependencies and start a webserver, run: ``` npm install npm run postinstall

```

Data Format and Naming

All files must be in the JSON format. Time should be measured in milliseconds.

All data must be placed in the /DATA folder

Your data must follow a specific naming scheme to be rendered by RasterVis. * Sessions must be named as (subject) + (sessionNumber) e.g. "Bob23" * Neurons must be named as "(sessionName)_(wireNumber)(unitnumber)" e.g. "Bob2311"

There are three main file types: * trialInfo.json * TrialInfo.json e.g. "Bob23TrialInfo.json" * Neuron.json e.g. "NeuronBob2311"

The trialInfo.json contains an array of three objects structured as follows:

|--neurons
    |--name: Name of neuron
    |--sessionName: Name of session
|--timePeriods
    |--name: Name of trial event
    |--label: Short label of trial event
    |--startID: Beginning of trial event
    |--endID: End of trial event
    |--color: Color of trial event
|--experimentalFactor
    |--name: Name of experimental factor to sort by
    |--value: experimental factor key
    |--factorType: continuous | categorical | ordinal

The (sessionName)TrialInfo.json is an array of objects corresponding to each trial. Each trial object contains the properties corresponding to trial events and experimental factors. For example: ``` { "trialid": 129, "starttime": 0, "fixationonset": 143, "ruleonset": 491, "stimonset": 934, "reacttime": 1065, "rewardtime": 1204, "endtime": 1232, "isCorrect": "Incorrect", "isIncluded": "Included", "FixationBreak": "No Fixation Break" } ```

The Neuron(neuronName).json contains an object structured as follows:

|--Name
|--BrainArea
|--Subject
|--FileName
|--NumberofTrials
|--Spikes: an array of spike objects corresponding to each trial
    |--trialid
    |--spikes: an array of spike times