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Filter species in a hal file #271

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agduncan94 opened this issue May 4, 2023 · 2 comments
Open

Filter species in a hal file #271

agduncan94 opened this issue May 4, 2023 · 2 comments

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@agduncan94
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Hello, I was wondering if there was a way to filter out a subset of species in a hal file in order to reduce file size?

For example, the zoonomia 240-way mammal alignment is around 1 TB, but lets say I'm only interested in the rodents and want to only look at those species. Is there a way I can create a new hal file with only the rodents?

Thank you for any help in advance!
@glennhickey
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halExtract <halfile.hal> <rodents.hal> --root <name of rodents ancestor>

@agduncan94
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Thank you Glenn!

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@glennhickey @agduncan94