Universal markers support a long inter-domain branch between Archaea and Bacteria supplemental material

This repository contains sequence alignments, trees, and python scripts used for the paper: <br><br>Universal markers support a long inter-domain branch between Archaea and Bacteria<br><br><br>Constraint_alignments_and_domain_IDs: This dir contains the constraint trees, and the fastas necessary for the AU comparison<br>Dating: This contains all files relevant for the dating analysis<br>Expanded alignments: this contains the various concatenates for the slow vs. fast/ number of markers test (cat1 and cat4 refer to IQTREE rate categories, 1 is slow, 4 is fast)<br>Python scripts: this includes the python scripts needed to calculate AB stem, check monophyly, convert IQTREE rate files into fasta, total tree length, and the python script to write constraint trees (from a simple .tsv)<br>Result_files: this contains the .csvs with all the results used for the paper, as well as the trees from the model/marker tests<br>Annotations_tables: contains the supplementary tables, sheets and scripts for the annotations, including table S1 in 7_Unimarkers_summary