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Identify potential issues with gene references and platforms #1234

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arteymix opened this issue Sep 26, 2024 · 1 comment

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arteymix commented Sep 26, 2024 •

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The strategy that I've implemented is to map single cell data vectors to elements of a platform using various IDs with some predefined precedence:

composite sequence name
NCBI IDs
Ensembl IDs
official symbols (likely ambiguous, only of last resort)

This is necessary because we do not reprocess the data and thus cannot have a predictable set of design elements.

There are some issues like how we should deal with ambiguous identifiers or vector that do not map to any known design elements.

arteymix added the single cell label

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arteymix commented Oct 18, 2024

For Ensembl IDs, we will have to trim version numbers. I need to find a test case for that.

arteymix self-assigned this

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