PyLMeasure is a Python wrapper library for the command-line interface of the neuronal morphology analysis tool L-Measure.
To install the library, simply type in pip install pylmeasure in your terminal.
The above command includes the necessary binaries -- no need to download L-Measure separatelly or install Java.
The basic usage is:
from pylmeasure import *
# Specify the L-Measure to compute. Full list: http://cng.gmu.edu:8080/Lm/help/index.htm
LMOutput = getOneMeasure('Surface', 'path/to/cell.swc')
print("Surface area:", LMOutput["TotalSum"])
For more examples, see this Jupyter notebook.
If you encounter an issue, first make sure it's not due to L-Measure itself -- this library simply wraps the L-Measure executables. If it is, please contact the L-Measure team. If the issue is with this library, please create an issue on Github.
To contribute, please open an issue first and discuss your plan for contributing. Then fork this repository and commit a pull-request with your changes.
This wrapper library project was initialy started by Ajayrama Kumaraswamy. View the original source.