Skip to content
The code used in the manuscript titled "Gene duplication and evolution in recurring polyploidization-diploidization cycles in plants".
Branch: master
Clone or download
Latest commit 7703a4b Jun 16, 2019
Type Name Latest commit message Commit time
Failed to load latest commit information.
calculate_Ka_Ks_pipeline Update Mar 2, 2019
compute_pearson_r Update Mar 2, 2019
detect_gene_conversion Update Feb 24, 2019
identify_Ks_peaks_by_fitting_GMM Update May 16, 2019
.DS_Store new file Jan 18, 2019 Update Jun 16, 2019


Here is summary of what these directories contain:

  • calculate_Ka_Ks_pipeline/: The pipeline used to compute Ka, Ks, and Ka/Ks for duplicated gene pairs.
  • compute_pearson_r/: The pipeline used to compute Pearson correlation coefficients (r) between expression profiles of the two gene copies.
  • detect_gene_conversion/: The pipeline used to detect gene conversion events.
  • identify_Ks_peaks_by_fitting_GMM/: The pipline used to infer the Ks peaks corresponding to WGD events of different ages by fitting Gaussian Mixture Model (GMM) to Ks distributions.


Qiao X, Li Q, Yin H, Qi K, Li L, Wang R, Zhang S, Paterson AH: Gene duplication and evolution in recurring polyploidization–diploidization cycles in plants. Genome Biology 2019, 20:38.

You can’t perform that action at this time.