Convergent evolution of NFP-facilitated root nodule symbiosis

# NFP Scripts and data associated with the manuscript "Convergent evolution of NFP-facilitated root nodule symbiosis." ## 00_sequencesThis directory contains NFP/LYR homologs and annotations. ## 02_alignmentsThis directory contains NFP alignments ## 03_treesThis directory contains gene trees and species tree guides for the analyses. ## 04_reconciliationThis directory contains notung files and figures for the gene tree reconciliation analysis ## 05_syntenyThis directory contains files for the synteny analyses. The base directory contains circos plots and a subdirectory `Synteny.2.2020` containing scripts and summary output as well as the following:### Results_Apr01.zipSummary of synteny results### csvs.zipAn archive containing all csvs in the analysis.### fastas.zipsynteny analysis - chr 5 v 8.zip### tsvs.zipAn archive containing all csvs in the analysis.### blasts.zipAn archive containing blast results.### coords.zipAn archive containing genome coordinate files.### gffs.zipAn archive containing GFF annotations.### gff3s.zipAn archive containing GFF annotations.### imgs.zipAn archive containing figure files used for preparing the manuscript. ## figsThis directory contains figure files used for preparing the manuscript. ## Scripts_used_CFThis directory contains submission and shell scripts used to conduct the analyses.