Evaluating metabolic and genomic data for predicting grain traits under high night temperature stress in rice

This repo contains all the code used in Bi et al. (2023).

Section1 Data Preprocessing

• .Rmd file

Section2 Correlation Analysis

• .Rmd file

Section3 Metabolic Classification

• .Rmd file

Section4 Metabolic Prediction

• .Rmd file

Section5 Genomic Prediction

• .Rmd file

Section6 Multi-trait Genomic Prediction

• "all_met" folder includes all the Virginia Tech Advanced Research Computing (ARC) R scripts and .sh files.

  • Abbreviations include scenario1 (sc1), scenario2 (sc2), control (con), and HNT stress (trt).

• .Rmd file

Section7 Subpopulation Analysis

• .Rmd file