brouwern
commented
2 years ago there are a number of them. the differences are beyond the scope of this test, but some relevant issues here's some info MUSCLE and T-Coffee are two other commonly used MSA software that use different approaches. ClustalOmega is a variante of ClustalW. I think msa() can run both Clustals and MUSCLE. There are a lot of different ways to approach MSA problems. Some methods rely just on direct sequence comparisons, while others do various types of statistical summaries of the sequences to quickly group together similar sequences.
On Sun, Oct 3, 2021 at 9:19 PM aes-186 @.***> wrote:
What other msa algorithms are commonly used aside from ClustalW and what factors affect which algorithm to use?
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What other msa algorithms are commonly used aside from ClustalW and what factors affect which algorithm to use?