Automated Analysis for Atomic Force Microscopy Images of Biomolecules
Project description
TopoStats
| How to use | Installation | Tutorials and Examples | Contributing | Licence | Citation | |
An AFM image analysis program to batch process data and obtain statistics from images.
How to Use
There is more complete documentation on the projects documentation website. This is hosted in two locations.
Installation
TopoStats is available via PyPI and can be installed in your Virtual Environment with...
pip install topostats
For more on installation please see the installation instructions
Tutorials and Examples
For a full description of usage please refer to the usage documentation.
A default configuration is loaded automatically and so the simplest method of processing images is to run
run_topostats
in the same directory as your scans after having activated the virtual environment in which you have
installed TopoStats
run_topostats
If you have your own YAML configuration file (see Usage : Configuring
TopoStats) then invoke run_topostats
and use
the argument for --config <config_file>.yaml
that points to your file.
# Edit and save my_config.yaml then run TopoStats with this configuration file
run_topostats --config my_config.yaml
The configuration file is validated before analysis begins and if there are problems you will see errors messages that are hopefully useful in resolving the error(s) in your modified configuration.
Contributing
Licence
This software is licensed as specified by the GPL License and LGPL License.
Citation
Project details
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Source Distribution
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