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Add edge-case testing for "jackpot" cells #17

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jacobkimmel opened this issue Jul 31, 2021 · 0 comments
Open

Add edge-case testing for "jackpot" cells #17

jacobkimmel opened this issue Jul 31, 2021 · 0 comments
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enhancement New feature or request

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@jacobkimmel
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Some cell profiles contain a large majority of reads mapping to a single gene (e.g. the Rn45s locus for low quality cells). These cells are usually filtered out during quality control, but in the event they persist in a dataset passed to scnym, they can lead to unstable training dynamics and failures to converge.

We should add simple quality control checks in .api.scnym_api that search for these cells in user provided datasets and throw a warning if they appear.

@jacobkimmel jacobkimmel self-assigned this Jul 31, 2021
@jacobkimmel jacobkimmel added the enhancement New feature or request label Jul 31, 2021
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