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For `snRNA-seq` we want to add `snRNAseq` as an alt name.
For `scRNA-seq` we want to add `scRNAseq` as an alt name.
This is to support the Ingest Validation Tools with the latest CEDAR updates.
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I am trying to use MapQuery for reference-based mapping using the following code:
seurat.reference
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Once #17 is done, the next step will be to identify differentially expressed genes on the `BayesSpace` clusters. There are several ways to do this and we currently don't have code for this at `spatial…
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Hi team!
I have been using cellchat for about a year now with snRNAseq, and just started with spatial transcriptomics.
When I try to run createCellchat using version 2, I run into an issue that I…
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# Background
https://github.com/x-atlas-consortia/ubkg-neo4j/issues/23
# Solution
If necessary, a new API endpoint.
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Hello,
I am performing NicheNet with SCTransformed-integrated data. I run PrepSCTFindMarkers() function before runing NicheNet for Seuratm but I keep getting error:
> Error in if (any(unlist(m…
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Hi Kai:
I was able to integrate snATACseq and snRNAseq data successfully.
I transferred the cell type information from the RNAseq data to the snATACseq data.
Using my marker genes, can I further…
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It'll be easier to run the spatial registration process in your own data if we have functions for doing something like https://github.com/LieberInstitute/HumanPilot/blob/master/Analysis/Layer_Guesses/…
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Related to #8 , it would be good if the `app.R` script had a dynamic drop down menu that only showed the valid typeouts that won't generate an error. This one will be more challenging.
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Hi,
With `pkgdown` version 2.1.0, I'm running into the following error when using `pkgdown::deploy_to_branch()`.
```R
Error in `build_reference()`:
! Failed to parse Rd in vis_gene_p.Rd
Caus…