Guide for reproducible scientific analysis

To reproduce the figure results in publication on Theoretical and Applied Genetics Wang et al, 2023,

please do the following 4 steps:

1. Clone the repository to your local environment. Folder structure should look like this:

R_script
¦--Wang_2023_TAAG.Rproj
¦--README.md
¦--data
¦ °--Wang_et_al_TAAG_2023_physiological_parameter.rds

¦--result
¦ °--Networkdata
¦ ¦--si_layout_circle.csv
¦ °--t_layout_circle.csv
°--src
¦--Data_preparation.R
¦--Fig1_preparation.R
¦--Fig1_S1.R
¦--Fig2.R
¦--Fig2_prep_fun.R
¦--Fig2_S3_4_preparation.R
¦--Fig3.R
¦--Fig3_4_6_preparation.R
¦--Fig3_6_prep_fun.R
¦--Fig4.R
¦--Fig5.R
¦--Fig5_prep_fun.R
¦--Fig5_preparation.R
¦--Fig6.R
¦--FigS3.R
¦--FigS4.R
¦--TC_theme.R
°--TC_theme2.R
2. Go to , Please download the following data from Zenodo and place it to the data folder * Wang_et_al_TAAG_2022_output_trait.rds
3. Install R package toolStability by install.packages("toolStability").
4. Run with the Data_preparation.R to FigS4.R in an ascending manner (order as shown above).

Enjoy!!

Citation info:

Wang, T-C., Casadebaig, P., Chen, T-W. More than 1000 genotypes are required to derive robust relationships between yield, yield stability and physiological parameters: a computational study on wheat crop. Theor Appl Genet (2023). https://doi.org/10.1007/s00122-023-04264-7