firasmidani / amiga

Analysis of Microbial Growth Assays
https://firasmidani.github.io/amiga/
GNU General Public License v3.0
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AMiGA

Analysis of Microbial Growth Assays is a user-friendly program for analysis of high-throughput microbial growth assays using Gaussian Process regression. Users can interact with AMiGA via a command-line interface.

Documentation:

See documentation for tutorials, technical details, and examples.

Installation:

See Installation for instructions and requirements.

License

This project is covered under the GPL-3 license.

Major Updates

See CHANGELOG for more details of changes and updates.

2021-04-22
Major structural and aesthetic changes to amiga with new features.

2020-11-04
Improvements to differential testing of growth.

2020-08-26
Structural changes and more functions: e.g. heatmaps, time-dependent noise, pooling of replicates.

2020-06-10
Improvements to how AMiGA stores and exports model-predicted growth data and growth derivative.

2020-04-25
The main driver script is now amiga.py. Please do not use main.py.

Bugs/Feature Requests

Please post issues here.

Manuscript and Citation

FS Midani, J Collins, and RA Britton.
AMiGA: software for automated analysis of microbial growth assays.
mSystems (2021). https://doi.org/10.1128/mSystems.00508-21

To reproduce analysis and figures in the manuscript, see Manuscript README.