Creating a multiple sequence alignment based on multiple genes.
I have run Panaroo on .gff files I obtained via Prokka from 160 genome assembly fasta files. Amongst the output I got from Panaroo were alignment files for each gene. I can use Clustal Omega or a similar MSA programme to obtain a MSA and phylogenetic tree from one of these files.
What would be the simplest way to obtain a MSA and phylogenetic tree based on several of these gene alignment files?
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matejasoretic •
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