Repositories list

• MutationLoad

  Public
  C

  •8•3•0•0•Updated Mar 9, 2026Mar 9, 2026

• Codon-Adaptation-Index-of-Species

  Public
  This repository contains scripts, data, and methods of analysis used in Codon Adaptation Index of Species (CAIS) related projects.

  Python

  •

  MIT License

  •1•2•1•0•Updated Aug 10, 2024Aug 10, 2024

• SelectiveDeaths

  Public
  R

  •0•0•0•0•Updated May 2, 2024May 2, 2024

• BackgroundSelection

  Public
  Python

  •0•0•0•0•Updated Nov 10, 2022Nov 10, 2022

• RandomPeptides

  Public
  Scripts for the random peptides project.

  R

  •0•0•0•0•Updated Apr 1, 2022Apr 1, 2022

• NonStationaryMatrix

  Public
  Python

  •1•0•0•0•Updated Dec 29, 2021Dec 29, 2021

• MaximumLikelihoodMatrix

  Public
  Python

  •0•0•0•0•Updated Dec 29, 2021Dec 29, 2021

• network-evolution-simulator

  Public
  C

  •

  GNU Affero General Public License v3.0

  •0•1•0•0•Updated Oct 6, 2021Oct 6, 2021

• ProteinEvolution

  Public
  Python

  •

  GNU General Public License v3.0

  •5•4•0•0•Updated Jan 18, 2021Jan 18, 2021

• Kosinski-and-Masel-CTerminalExtensions

  Public
  Scripts for our paper on pre-adapting selection in yeast C-terminal extensions.

  R

  •0•0•0•0•Updated Mar 8, 2020Mar 8, 2020

• Gomez_et_al_2020

  Public
  Python

  •0•0•0•0•Updated Feb 18, 2020Feb 18, 2020

• Meer-et-al-Transcriptional-Error-Rates

  Public
  R

  •1•0•0•0•Updated Oct 26, 2019Oct 26, 2019

• A-shift-in-aggregation-avoidance-strategy-marks-a-long-term-direction-to-protein-evolution

  Public
  S.G. Foy, B.A. Wilson, M.H.J. Cordes, J. Masel. Progressively more subtle aggregation avoidance strategies form a long-term arrow of protein evolutionary time. …

  Perl

  •0•0•0•0•Updated Feb 4, 2019Feb 4, 2019

• Gomez_et_al_2018

  Public
  Mathematica

  •1•0•0•0•Updated Dec 14, 2018Dec 14, 2018

• Xiong-et-al-Error-rate-evolution-with-variation-in-gene-expression

  Public
  MATLAB

  •0•0•0•0•Updated Jul 2, 2018Jul 2, 2018

• Willis_Masel_Overlapping_Genes_Structural_Disorder_Explained

  Public
  Python

  •0•0•0•0•Updated Jun 13, 2018Jun 13, 2018

• 2017-Young_Genes_are_Highly_Dis_as_Pred_by_Preadaptation_Hypo_of_De_Novo_Gene_Birth

  Public
  Wilson, B.A., Foy, S.F., Neme, R., & Masel, J. Young Genes are Highly Disordered as Predicted by the Preadaptation Hypothesis of De Novo Gene Birth. 2017.

  Perl

  •0•1•0•0•Updated Apr 24, 2017Apr 24, 2017

• Bertram_et_al_Evolution_2016

  Public
  Mathematica

  •0•0•0•0•Updated Oct 17, 2016Oct 17, 2016