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1. avida_host-parasite avida_host-parasite Public

   Configuration files and data set used in the following study: "Non-adaptive origins of evolutionary innovations increase network complexity in interacting digital organisms", published in the speci…

   Shell 2

2. Nestedness Nestedness Public

   Scripts to calculate the nested structure of a bipartite matrix and the null models used to test the statistical significance of nestedness.

   MATLAB 1

3. WebOfLife WebOfLife Public

   Jupyter notebook writen in R to access, download, manipulate, analyze, and plot data on the species interaction networks stored in the Web Of Life database (a kind of API).

   Jupyter Notebook 1 1

4. coevolutionary_networks_in_the_lab coevolutionary_networks_in_the_lab Public

   Dataset and R code used in the following study: "Coevolutionary dynamics shape the structure of bacteria-phage infection networks", published in Evolution (2019).

   R 1

5. BirdMigrationNetworks BirdMigrationNetworks Public

   Data set and R code used in the following study: "Phylogenetically-conserved bird migration networks determine the distribution of avian flu", which has been recently submitted (2020).

   R 1

6. avida_genbank avida_genbank Public

   Configuration files and bash scripts used in the following study: "The genotype-phenotype map of an evolving digital organism", published in PLoS Computational Biology (2017).

   Shell