GitHub - wilkelab/therm_constraints_rate_variation: Code and data for Echave et al., Relationship between protein thermodynamic constraints and variation of evolutionary rates among sites, Phys. Biol. 12:025002, 2015.

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Code and data for Echave et al., Relationship between protein thermodynamic constraints and variation of evolutionary rates among sites, Phys. Biol. 12:025002, 2015.

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Name		Name	Last commit message	Last commit date
Latest commit History 12 Commits
Huang_et_al_data		Huang_et_al_data
ddG_calculations		ddG_calculations
empirical_rate_calculations		empirical_rate_calculations
model_rate_calculations		model_rate_calculations
README.txt		README.txt

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This repository contains all data and scripts to reproduce the results of:
Julian Echave, Eleisha L. Jackson, Claus O. Wilke. Relationship between protein thermodynamic constraints and variation of evolutionary rates among sites. Phys. Biol. 12:025002, 2015.

Contents:

Huang_et_al_data/
	Contains the data from Huang et al. (2014) 
ddG_calculations/
	Contains the scripts, data, files etc associated with the rosetta and FoldX ddG calculations
empirical_rate_calculations/
	Contains the scripts, data, files etc associated with the calculation of the evolutionary rates using Rate4Site
model_rate_calculations/
        Contains the scripts and output associated with the calculation of the evolutionary rates predicted by the stability model and the stress model

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Code and data for Echave et al., Relationship between protein thermodynamic constraints and variation of evolutionary rates among sites, Phys. Biol. 12:025002, 2015.