Comparing rates across models
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analyze_rates
count_subs
data
rate_inference
.gitignore
README.md

README.md

Repository for Relative evolutionary rates in proteins are largely insensitive to the substitution model

See here for publication version of repo.


Contents

  • rate_inference/ contains all code and results for inferring relative evolutionary rates using the LEISR implementation

  • data/ contains all sequence alignments and phylogenies, including generating code, analyzed in rate_inference/

  • count_subs/ contains all code and results for substitution counting

  • analyze_rates/ contains all code used to analyze and process data, as well as MS figures and processed data CSVs

    • Reproduce using the R script analyze_rates/pipeline.R. See comments in this file for some key notes, including Python scripts which need to be run first.