wisamreid / neurites Goto Github PK

Description: Developed for the Williams lab for the morphological detection and analysis of dendritic fields. 1. Synapse Analysis : Detects and analyses regions of apposition (potential synaptic regions) of overlapping dendritic fields of two neurons. 2. Annulus Analysis : Analyses the neurites of a single neuron under an annulus. Also presents information on a dendrogram with higlighted branches.

1. Image (tiff or jpg) (eg, from Neurolucida tracing) a. Synapse Analysis: requires two neurons in separate colors b. Annulus Analysis: single neuron
2. CSV analysis files for each cell eg, Neurolucida measurements: Tab 2 'Segment Points to Dendrites'

Output files: NB. Output files will be overwritten on each run (rename files in browser to save if necessary)

1. Neurites_data.csv (analysis)
2. Neurites_roi.tif (ROI mask image)
3. Neurites_config.csv (Configuration for overlay of CSV data)

1. Neurites_data.csv (analysis)
2. Neurites_roi.tif (ROI mask image)
3. Neurites_config.csv (Configuration for overlay of CSV data)

Matlab version R2015a (other versions not tested) Matlab Image Processing Toolbox Matlab Statistics Toolbox

Refer to https://github.com/QBI-Software/Neurites/wiki/Instructions