Python module to identify and label crop varieties using genotyping data
The code in this repository was developed by IDM to support our research into seed system capacity. We've made it publicly available under the MIT License to provide others with a better understanding of our research and an opportunity to build upon it for their own work. We make no representations that the code works as intended or that we will provide support, address issues that are found, or accept pull requests. You are welcome to create your own fork and modify the code to suit your own modeling needs as contemplated under the MIT License.
To run the code, you will need counts data from a panel of SNPs, a corresponding metadata file with sample information, and a json with parameter values. Example data and instructions for how to run the pipeline can be found in the tutorial folder.