Question: Generating Multiple Alignment Format file (Maf)
0
gravatar for roz_safavi
4.1 years ago by
roz_safavi0
roz_safavi0 wrote:

Hello,

I have 3 fasta files which I'd like to perform multiple alignment on them and generate "Multiple Alignment Format" output. I was wondering if anyone knows how to do that? I was thinking about Mafft, but Mafft does not produce maf output.

Best, Rojin

multiple alignmnet maf • 2.0k views
ADD COMMENTlink modified 4.1 years ago • written 4.1 years ago by roz_safavi0

I'm working on relatively short sequences right now ( around 200) but this is my test set. Later I'm gonna apply the pipeline to larger sequences around 1k-5k. I was thinking about that, but Last does not do multiple laingmnet (>2 sequences), correct?

ADD REPLYlink written 4.1 years ago by roz_safavi0

Do you have a specific need for MAF format alignments?

ADD REPLYlink written 4.1 years ago by GenoMax94k

Yes, I need to have a maf format so that I can use maf2hal tool to convert maf to hal format

ADD REPLYlink written 4.1 years ago by roz_safavi0
Please log in to add an answer.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 2131 users visited in the last hour
_