Code

Here you will find some of my recent projects:

  • ChimeraUGEM: a software tool that I developed for predicting gene expression as well as optimizing the coding sequence of a target gene to any host organism.
Position-Specific ChimeraMap: an algorithm for engineering expression-optimized genes
  • SCOM: a method for inter-species clustering and comparison of 3D gene organization.
  • A number of useful functions and models for gene sequence analysis, focusing on codon usage. These include, among others, the CUFS model that we developed to measure the distance between pairs of genes in terms of their codon usage.
  • A toolbox for managing parallel jobs on a PBS cluster.