🚴 Kinship Adjusted Multi-Loci Best Linear Unbiased Prediction
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Updated
Aug 31, 2023 - R
🚴 Kinship Adjusted Multi-Loci Best Linear Unbiased Prediction
Can deep learning improve genomic prediction of complex human traits? by Pau Bellot, Gustavo de los Campos, Miguel Pérez-Enciso, Genetics
2024 BreedWheat Genomic Selection pipeline
Trait BLUP, a Feature Selection Package for Genomic Prediction
Training set determination for genomic selection.
Code for "Using machine learning to combine genetic and environmental data for maize grain yield predictions across multi-environment trials" (Fernandes et. al 2024)
Some deep learning genomics projects
Genomic prediction of amino acid traits in Arabidopsis seeds
BAMdelbee is a novel tool for discovering homozygous deletions in Whole-exome-sequencing (WES) and whole-genome-sequencing (WGS) data. WES or WGS samples generated by the same method produce BAM files with similar alignment coverage across the genome. BAMdelbee locates homozygous deletions by pinpointing regions covered in all samples but the on…
Gradient Boosting Regression (GBR, https://github.com/scikit-learn/scikit-learn) model for genomic predictions
Evaluating metabolic and genomic data for predicting grain traits under high night temperature stress in rice
Code associated with 'Rapid polygenic adaptation in a wild population of ash trees under a novel fungal epidemic'
Solves kernel ridge regression within the the mixed model framework. All the estimated components and parameters, e.g. BLUP of dual variables and BLUP of random predictor effects for the linear kernel (also known as RR-BLUP), are available.
Impact of LD regional heterogeneity on genome prediction and heritability estimation in livestock
TARI 2020 GS: (1) Conversion of DArTseqLD data and imputation of DArT report DCas20-5629 (with GS C1). (2) Cross-validation and genomic prediction
Quantitative and population genetics analyses of populations, pools, half-sib/full-sib families, and polyploids
This is a public repository for relevant code from the publication of the same name.
This project documents informatics and genomic prediction to support the National Root Crop Research Institute 2021 cassava genomic selection breeding program.
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