-
Hi,
I'm trying to run the code of the vignette "Integrative analysis in Seurat v5" to check that everything is running correctly.
Unfortunately, when trying to use the scVIIntegration method it fa…
-
Dear umi tools team,
I've a bam file coming from Cel-Seq2 protocol, I'm trying to adapt it to run RNA velocity. To do that, I need to include a CB tag for the cell barcode and a UB tag for the UMI…
-
https://mp.weixin.qq.com/s/QCqTptYSd8BjdtmIPBl0Kw
ixxmu updated
5 months ago
-
I am analyzing 9 Visium samples that need to be integrated and I want to use SCTransform normalization. In attempting to adapt the vignette https://satijalab.org/seurat/articles/integration_introd…
-
Hi,
I am stuck in the "--gene-tag=XT" parameter for our single-cell data based on CEL-seq2 using "umi_tools count" tool. I tried the test dataset named "hgmm_100_fastqs.tar", however, the "geneset.…
-
https://mp.weixin.qq.com/s/-FEkoctszOHLYpcgt4FvUQ
ixxmu updated
1 month ago
-
Hello,
First of all thanks for this pipeline, using it is nice.
I do however have a question, how can I modify the pipeline to keep the bam/sam files? I want to check RNA velocity but cant seem to…
-
https://mp.weixin.qq.com/s/jpugbjhVvOQIESTCZcbW-A
ixxmu updated
1 month ago
-
When I was in seurat v5 when running the code
```
obj
-
Hi, all
I'm just a fresh man using Seurat. when I run tutorial code step by step, an error occurred in SCTransform function as following:
> library(Seurat)
library(SeuratData)`
library(Seu…