I have a folder with around 100 multifasta files. I want to align each multifasta file inidividually using MAFFT. Each multifasta file ends with
.unaligned.fasta I would like to change those file endings to
I have tried using MAFFT normally on the command line as so, with asterisks to allow for multiple characters where necessary:
mafft --quiet *.unaligned.fasta > *.aligned.fasta
However, I get error messages like this one
Unknown option: beaverHb.unaligned.fasta
for all of my multifasta files.
How can I align all my multifasta files using MAFFT in the command line?