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Handle MEX datasets with barcode_metadata.tsv.gz files #1210

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arteymix opened this issue Aug 27, 2024 · 1 comment
Open

Handle MEX datasets with barcode_metadata.tsv.gz files #1210

arteymix opened this issue Aug 27, 2024 · 1 comment
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enhancement Enhance the code or user experience low priority single cell Issues related to single-cell data support

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@arteymix
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This file format is used for datasets that are aligned against a combined reference (i.e. hg19 + mm10). It contains additional columns with per-species counts and a call that indicate which species the cell is coming from.

Example: https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE218621

@arteymix arteymix added enhancement Enhance the code or user experience single cell Issues related to single-cell data support labels Aug 27, 2024
@arteymix
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I've added support for detecting those cases as MEX, but not download or load them. We will likely have to transform the file to extract barcodes relevant to the species indicated in the sample.

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Labels
enhancement Enhance the code or user experience low priority single cell Issues related to single-cell data support
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