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ArielLevineLabNINDS / SeqSeek_Classify_Full_Pipeline

Use DVC to run the full pipeline from Russ, Patterson-Cross, et al.
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Missing metadata #4

Open Sashmegash opened 2 years ago

Sashmegash commented 2 years ago

Thanks for making your data available. The lab I'm part of is using it to validate our own spinal cord single nucleus RNAseq data. We've been using the label transfer (MapQuery) feature of Seurat to see which of your clusters most closely line up with our data. To do this, we need each cell in the reference object (your data) to be assigned to some group, which you have provided for your final cluster assignment.

We'd also like to use label transfer to investigate spinal laminae and also the original study from which the cell/nucleus was taken, but we can't find where you have stored this meta data. From looking at the figures published on your data, mainly in figure 2 (https://www.nature.com/articles/s41467-021-25125-1/figures/2), it seems like you have these annotations. Would you be able to direct me to where you have those annotations, or provide them in another way?

Thanks again!

LooLipin commented 1 year ago

Following up on this request, it would be great if we can get access to the laminae metadata.

Thanks!