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I was trying to read seurat object saved previous, but was told that "Error in .requirePackage(package) :
unable to find required package 'SeuratObject'".
The package "SeuratObject" is on the ve…
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Hi- I am trying to take Seurat objects and write loom files and use them in loompy but I have run into this error:
Seurat.loom does not appead to be a valid Loom file according to Loom spec version '…
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Dear @NHLBI-BCB and @xizhihui
Thank you for developing the package!
I have processed my data using SCTransform() (which replaces NormalizeData(), ScaleData() and FindVariableFeatures()) and hav…
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Hello,
I have 10x data that I have initially analyzed using cell ranger and scanpy and I was now starting the analysis with velocyto.
I have performed counting on cellranger output files and then co…
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Hello,
I'm working through the tutorial of Seurat V3. I need to create individual Seurat objects and merging them. This merged Seurat object will be imported to Monocle. The question is whether the…
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I tried to sctransform a BPCells matrix based seurat obj, but since it contains more than 2^31-1 non zero values, it failed. So i split the BPCell matrix based seurat object, and then run sctransform …
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# Background
rds objects downloaded from Cellenics contain EnsemblIDs as rownames (as default and most prevalent case), with the gene symbols stored in the `@misc$gene_annotations` slot.
This impli…
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I took a seq dataset into Seurat to find markers.
I run this code:FindMarkers(pbmc, ident.1 = 2, min.pct = 0.25)
Result in:Error in FindMarkers.StdAssay(object = data.use, slot = slot, cells.1 = cel…
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Hi,
I have precomputed seurat objects. Can I use these objects? or any example?
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Hi there,
Congrats on a great work, and thanks for developing this package.
I am attempting to pull TCR-seq data for T cells that also have the GEX/CITE-seq Seurat objects.
**QUESTION 1.** …