cropgbm 1.1.2

Crop Genomic Breeding machine (CropGBM) is a multifunctional program that integrates data preprocessing, population structure analysis, SNP selection, phenotype prediction, and data visualization.

# Welcome to CropGBM！

Crop Genomic Breeding machine (CropGBM) is a multifunctional program that integrates data preprocessing, population structure analysis, SNP selection, phenotype prediction, and data visualization. Has the following advantages:

• Use LightGBM algorithm to quickly and accurately predict phenotype values and support GPU-accelerated training.

• Supports selection and visualization of SNPs that are strongly related to phenotype.

• Support PCA and t-SNE two dimensionality reduction algorithms to extract SNP information.

• Support Kmeans and OPTICS two clustering algorithms to analyze the sample population structure.

• Plot histograms of heterozygosity rate, deletion rate, and frequency of alleles for genotype data.

English version documentation: [https://ibreeding.github.io](https://ibreeding.github.io)

Chinese version documentation: [https://ibreeding-ch.github.io](https://ibreeding-ch.github.io)

Download link: [https://github.com/YuetongXU/CropGBM](https://github.com/YuetongXU/CropGBM)

Cite:

Contact us: [e-mail]

Note: Academic users can download directly, industrial users first contact us.