Ircinia-Metagenomics

This repository contains the code required to reproduce the results of Kelly et al. 2022 (in review). The input files for the R code were generated following the metagenomic contig assembly, binning, annotation, and analysis. For convenience, the input files are provided.

Name		Name	Last commit message	Last commit date
Latest commit History 6 Commits
Fig1_phylogeny		Fig1_phylogeny
Fig2_enrichmentAnalysis		Fig2_enrichmentAnalysis
Fig3_S3_CSG_on_tree		Fig3_S3_CSG_on_tree
Fig5_variants		Fig5_variants
FigS1_S2_coverm_and_metabolism		FigS1_S2_coverm_and_metabolism
Figure4_omega		Figure4_omega
FigureS4_HGT_trees		FigureS4_HGT_trees
MAGassembly_annotations_dnds		MAGassembly_annotations_dnds
.DS_Store		.DS_Store
README.md		README.md
jModelTest_MrBayes.txt		jModelTest_MrBayes.txt