Concatenating alignments

The concat app provides a mechanism to concatenate alignments.

Let’s create sample alignments with matching sequence names to use in the below examples.

How to concatenate alignments

By default, sequences without matching names in the corresponding alignment are omitted (intersect=True).

How to concatenate alignments with missing sequences

By providing the argument intersect=False, the concat app will include missing sequences across alignments. Missing sequences are replaced by a sequence of "?".

How to concatenated alignments with a delimiter "N"

You can insert an "N" character in between the concatenated sequences.