PolNet Analysis: a software tool for the quantification of network-level endothelial cell polarity and blood flow during vascular remodelling

PolNet's graphical user interface and main pre- and post-processing algorithms. This repository contains the source code needed to build the PolNet application. You may find it easier to take a look at our Docker containers including a prepackaged installation of PolNet rather that building your own from source. The requirements/instructions below correspond to a PolNet installation from source.

Requirements

• MATLAB.
• A working MATLAB MEX environment.
• Python including the packages: argparse, numpy, csv, matplotlib, lxml.
• A HemeLB installation.
• A VTK installation including headers and libraries. Version 6 or higher.

PolNet installation instructions

• Run compile_VTP_writer.m to compile the MEX files that provide the interface to VTK. You may need to edit the file to indicate the location of the VTK headers and libraries in your system.

Source code being redistributed

• As part of this repository, we redistribute:
  • CircStat2012a/
  • voronoiSkel.m

Running PolNet

• Run PolNetGUI.m to launch the application.