Question

MSA INDEL Realigner

0

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9.3 years ago

Coryza ▴ 430

Hi all,

Does someone know if there's a tool that is able to realign INDELs based on MSA (preferably clustalw/clustalo) output; similar as to what GATK does on BAM files?

Thanks!

indels realign MSA • 2.2k views

ADD COMMENT • link updated 2.2 years ago by Ram 44k • written 9.3 years ago by Coryza ▴ 430

Ram · Accepted Answer · 2015-08-20

2

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9.3 years ago

h.mon 35k

Mafft has an option to realign particular regions, but I don't how it will perform at realigning indels.

ADD COMMENT • link updated 2.2 years ago by Ram 44k • written 9.3 years ago by h.mon 35k

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Entering edit mode

Hi - I've looked into your suggestions and it seems that it's exactly doing as how I would want it to do.

ADD REPLY • link updated 2.2 years ago by Ram 44k • written 9.3 years ago by Coryza ▴ 430