vpv

Volume Phenotype viewer. A desktop 3D volume viewer, for analysing results of automatic phenotype detection from the LAMA pipeline

Developed in Python using QT, and the superb PyQtGraph

Dependencies

• python3 => 3.6
• scipy
• PyQt5
• PyQtGraph

Getting started

On Linux

Get the VPV code

Either install git, then:

$ git clone https://github.com/mpi2/vpv.git

Or download the source code and uzip

Install dependencies

# The following will install pipenv, which manages the dependencies
$ cd vpv/
$ ./setup_VPV.py

Running VPV

# Activate virual environment
$ cd vpv/
$ pipenv shell
$ ./vpv.py 

On Windows

Download the latest Windows installer from here

Or get python3 (For example Anaconda installed and follow instruction as for running on Linux above.

Instructions

Drag and drop an image to overlay the stats onto (population average for example) and the t-statistics overlay Make sure "Volume" is selected for the image and "Data" is selected for the overlay in the import dialog

Take a look at the vpv wiki

Authors

This software was developed by Neil Horner in the Bioimage Informatics Group at MRC Harwell UK (https://www.har.mrc.ac.uk) under the supervision of Henrik Westerberg.

If you have any questions or comments, please contact us at bit@har.mrc.ac.uk

License

This project is licensed under the Apache License, Version 2.0 - see the LICENSE.md file for details