pocpbenchmark: raw output files from benchmark workflow before analyses

These files are a selection of output files that needs to be cleaned and formatted for the analyses in the manuscript (preprint: 10.1101/2025.03.17.643616, workflow for the manuscript). They are produced by our Nextflow workflow. The 35 zip files (one for each Family analyzed) are output files from the Nextflow workflow at https://github.com/ClavelLab/pocpbenchmark/tree/v1.0. To reproduce the analysis of the manuscript, they should be placed in a folder named `data_benchmark`. shortlisted_genomes.csv contains the list of genomes that passed all criteria for our benchmark: if (1) the bacteria had a valid name according to the List of Prokaryotic names with Standing in Nomenclature and a representative genome was available, (2) they belonged to a family with at least two genera, and (3) to a genus with at least ten genomes. cpu_hours_benchmark_type_per_family.csv contains the collected CPU hours from the Nextflow reports for all 35 processed families.