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Add gene symbols to rowData #35

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jaclyn-taroni opened this issue Sep 2, 2021 · 0 comments · Fixed by #53
Closed

Add gene symbols to rowData #35

jaclyn-taroni opened this issue Sep 2, 2021 · 0 comments · Fixed by #53
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@jashapiro
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@jaclyn-taroni
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We had a request to add gene symbols into the SingleCellExperiment. Our initial thoughts on how to do this were:

  • Use the GTF (e.g., don't use AnnotationDbi)
  • The GTF could be passed as a reference file argument to read_alevin() and the identifiers could be put in rowData
  • If the GTF contains other identifiers, such as Entrez IDs, we might consider adding them, too
@jaclyn-taroni jaclyn-taroni added the unfiltered Relevant to unfiltered RDS made available to users label Sep 2, 2021
@jashapiro jashapiro self-assigned this Sep 27, 2021
This was referenced Sep 27, 2021
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Function to add gene symbols to rowData AlexsLemonade/scpcaTools
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