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find taxon id for sample from NCBI taxonomy browser #418

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blankdots opened this issue Aug 10, 2021 · 0 comments
Open

find taxon id for sample from NCBI taxonomy browser #418

blankdots opened this issue Aug 10, 2021 · 0 comments
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backend backend issue enhancement New feature or request on new board

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@blankdots
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blankdots commented Aug 10, 2021

Description

As a researcher submitting a sample i need to be able to find a taxon by its name or its id as exemplified here: https://www.ncbi.nlm.nih.gov/Taxonomy/taxonomyhome.html/index.cgi?chapter=howlink

image

The API does not seem to have an XML or JSON response so we might need to set up our own data from the ftp: https://ftp.ncbi.nlm.nih.gov/pub/taxonomy/new_taxdump/

(information here: https://ncbiinsights.ncbi.nlm.nih.gov/2018/02/22/new-taxonomy-files-available-with-lineage-type-and-host-information/ )

This might require a corresponding issue in backend

DoD (Definition of Done)

Autocomplete Sample taxon id using NCBI taxonomy

Testing

unit and integration testing

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backend backend issue enhancement New feature or request on new board
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