Eric Siegel
Eric Siegel
Closing the issue as we haven't received a response. If you are still dealing with this issue please reopen.
With the latest version of loupeR this is now possible.
Maybe it's best to reach out to [email protected] .
By default loupeR looks for the counts matrix at `assay$counts`. It seems that the `singleCellITK` tool creates a new counts matrix at `decontXcounts` as can be seen [here](https://github.com/compbiomed/singleCellTK/blob/578583f9f09189c0196288ca046e9bd4e31567be/R/seuratFunctions.R#L1682-L1683). The error...
Closing as there is a work around.
@jiangldu It's hard to know what's going on from images. Would you be able to share an RDS export of the seurat object before you export it as a Loupe...
Can you give more of an explanation of what this PR is doing? Can users not use the `BPCells` library and then invoke the `create_loupe` function with their custom count...
After thinking about it, I think adding BPCell support would be a great feature. Seems like it is popular enough - Seurat even has vignettes encouraging using it. Maybe for...
> One small thing to flag in advance: when using `BPCells` to output the 10x-style matrix HDF5, it _always_ writes the `barcodes` and `features` groups in its own implementation. In...
Just checking in. Any update on this?