Several new features/options were included
- combination of summary tables in XLSX format (a new script)
- alternative consensus calling with ambiguous bases and its processing
- selection of loci with low heterozygosity (possible exclusion of paralogue/chimeric sequences)
- more option for RAxML gene trees calculation (model selection - GTRGAMMA or GTRCAT, bootstrap - standard or rapid, number of bootstrap replicates, bootstopping option)
- BUCKy concordance tree
- modified test dataset
- all scripts are nearly fully working on Smithsonian HPC (Hydra)
- installation of BCFtools added to install_software.sh
- updated manual
- updated 'settings.cfg'