Rhometa: Population recombination rate estimation from metagenomic read datasets

Rhometa provides a suite of pipelines for calculating the recombination rate in metagenomic datasets. The tool is developed using Nextflow, a workflow management tool, and the Python programming language. The repository contains all results generated using Rhometa for the manuscript. During the development of Rhometa, various pipelines were employed, including our Nextflow LDhat pipeline. The scripts and results for all pipelines are included. The Github repositories for the pipelines are referenced in the accompanying manuscript. Files named "figure" pertain to the evaluation of simulated data, the simulations themselves have not been included to save space. However, the scripts used to generate the simulations and the final results are included. The file "Lookup_tables.zip" contains lookup tables used in the analysis. The lookup tables are too large to include, but the scripts used to create them are included. Where applicable, experiment accession codes are provided.