Hello. I've come across an alignment project, which requires me to 'implement simple MSA' in Java. I know there are many great tools out there, but as I am to implement my software I need a hint on how to align multiple fasta sequences and write that to an outfile for example. I can use any library or implement algorithm from the scratch. Workload is not going to be very intensive, so a basic algorithm might work. Are there any libraries meant to do that? If not, where can i find sources on how to implement my own msa?
Thanks for help.