Changes in version 1.3.1 CHANGES - Added functions to explore assembly and annotation statistics in a context: assembly and annotation stats for NCBI genomes can be extracted through the Datasets API and compared with user-defined values. New functions: get_genome_stats(), compare_genome_stats(), and plot_genome_stats(). Changes in version 1.1.8 CHANGES - Synteny assessment formula now also considers scale-free topology fit. BUG FIXES - Reference-based orthogroup inference does not require the exact same set of species anymore. Changes in version 1.1.7 BUG FIXES - Variable Duplications_50 of the duplications data frame was not matching variable Dups of the stats data frame in the output of read_orthofinder_stats() NEW FEATURES - Replaced dispersal formula with a more meaningful and interpretable one. - Added a max_size param to plot_og_sizes() to ignore OGs larger than a specific size. Changes in version 1.1.4 NEW FEATURES - Added option to scale scores by the maximum value Changes in version 1.1.3 NEW FEATURES - Added a correction for overclustering in calculate_H() that penalizes protein domains in multiple orthogroups. - Updated vignette to provide a detailed explanation of how homogeneity scores are calculated. Changes in version 0.99.0 NEW FEATURES - Added a NEWS.md file to track changes to the package.