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Add Genbase sequences to open data #402

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corneliusroemer opened this issue May 5, 2023 · 1 comment
Open

Add Genbase sequences to open data #402

corneliusroemer opened this issue May 5, 2023 · 1 comment
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enhancement New feature or request

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@corneliusroemer
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Most Chinese sequences are now open, this should be a useful addition to open data

Usher now pulls these, it seems to work. We can probably copy the approach, see yatisht/usher#337 (comment)
@corneliusroemer corneliusroemer added the enhancement New feature or request label May 5, 2023
@AngieHinrichs
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In case it's of any use, here's my script that fetches all metadata and uses GenBase's API to download (one at a time unfortunately) the sequences that I don't already have: https://github.com/ucscGenomeBrowser/kent/blob/master/src/hg/utils/otto/sarscov2phylo/getCncb.sh

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@AngieHinrichs @corneliusroemer