Sperm Gatekeeping: Image Analysis Script

“Sperm gatekeeping: 3D imaging reveals a constricted entrance to zebra finch sperm storage tubules”

Authors: Tania Mendonca, Ashley J Cadby, Nicola Hemmings

Contact: Tania.Mendonca@nottingham.ac.uk

MATLAB (2015b) scripts for extracting SST diameter and length measurements from 3D image stacks taken with a selective plane illumination microscope (SPIM). Please refer to the Methods section of "Sperm Gatekeeping: 3D imaging reveals a constricted entrance to zebra finch sperm storage tubules" for a description of the analysis pipeline.

Input (for each SST): 1 Image ‘.tif’ file, 1 dilated version of image ‘.tif’ files and 2 trace ‘.swc’ files

Requires:

1. ‘extractSlice.m’ Pangyu Teng (2011)

https://uk.mathworks.com/matlabcentral/fileexchange/32032-extract-slice-from-volume.

2. ‘arclength.m’ John D’Errico (2012)

https://uk.mathworks.com/matlabcentral/fileexchange/34871-arclength.