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Quickly examining many MSAs

I need to look at hundreds of MSAs for visual QA. I have the aligned fasta files on my file system and looking for a software that will allow me to quickly browse through them. For example, I tried Jalview, which works nicely but I could not find a way to load many MSAs at once and quickly swipe through. Is anyone aware of a tool that can do this, or has other suggestion?

msa
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updated by Dave Carlson Dave Carlson • written by liorglic liorglic

1 answer

I would suggest a command line, non-GUI alignment viewer. There are several options, I think. For example:

https://github.com/arvestad/alv

https://github.com/mpdunne/alan

You should be able to use one of these in conjunction with some simple scripting to make browsing of multiple MSAs more efficient.

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written by Dave Carlson Dave Carlson

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