Supplementary information, data and code associated with the publication: Local adaptation in populations of Mycobacterium tuberculosis endemic to the Indian Ocean Rim. Menardo et al. (2021)

https://f1000research.com/articles/10-60/v1 DOI: 10.12688/f1000research.28318.1

The folder Supplementary_text_figures_tables contains supplementary text, figures and tables

The folder Dating_beast contains the xml files for the dating analyses

The folder EsxH_haplotype_association_test contains the code and input files to perform the test of association between diferent haplotypes and geographic regions

The folder EsxH_PAML contains the control files and input files to perform the positive selection analysis on EsxH

The folder Mascot contains the xml files for the Mascot analyses

Supplementary_file_1.html: PASTML results for L1, compressed tree

Supplementary_file_2.html: PASTML results for L1, complete tree

Supplementary_file_3.html: PASTML results for L3, compressed tree

Supplementary_file_4.html: PASTML results for L3, complete tree