Using MSAJ

MSAJ is a single window application, when you initialize it you will see a few icons, a text box and a disabled button.

It can join Multi Sequence Alignments (MSA) in FASTA and NEXUS file formats. These MSAs must have the same number of taxa with the exact same name accross all files, otheriwse the application will not join the MSAs, once it will not be capable of matching taxa among files. If this happens and error will be shown in the text box.