a. Introduction

Installation

Some modules of FlexMetR require dependencies that can be set up inside an environment:

mamba create -n FLEXMETR ete3 matplotlib biopython

Install FlexMetR from local alpha-distribution

conda activate FLEXMETR
git clone https://github.com/FOI-Bioinformatics/flexmetr
pip install flexmetr/

Guide files:

• test_genomes.dnd
• metadata.tsv

Tree-file:

• Various (N=111) test genomes of family Francisellaceae (N=43; multiple genus and species), genus Burkholderia (N=67), and E. coli (N=1).

Metadata-file columns:

• Accession
• file_path
• family
• genus
• species
• mycol1 (an arbitrary test-column)