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Hi,
I have just started exploring RCTD. I have two 10x spatial visium slides from brain area. Each slide with 4 sections. So, total 8 samples. These are merged in Seurat. I will use a reference scR…
gebdu updated
6 months ago
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Hello~
We have a scRNAseq result of primary tumor and matched metastasis sample.
Under the assumption that metastasis sample has a higher value of pseudotime and primary sample is root state, w…
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Hello,
I am trying to use the tool for my scRNAseq data and I have the following error. Could maybe give some Feedback on that?
Does this have to do with the Seurat version I am using? I cannot un…
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Hello,
I'm interested in using scglue to integrate my scRNAseq with scATACseq data, comprising four paired samples. These datasets are not multiome; they're only paired samples.
After processing…
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Hi, I would like to use the scrnaseq pipeline to generate the TCC matrix output (transcript-compatibility counts) from kallisto-bustools. (I am trying to generate the cell x transcripts matrix instea…
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- compare cell type proportions
- how to take into account cell types missing in one modality? is it a problem?
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May i ask 1 question:
if data is already pseudobulk object from scRNAseq data with logCPM value, how can i change it back to a seurat object with counts value? Can i still use above method to turn …
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May i ask 1 question:
if data is already pseudobulk object from scRNAseq data with logCPM value, how can i change it back to a seurat object with counts value? Can i still use above method to turn …
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May i ask 1 question:
if data is already pseudobulk object from scRNAseq data with logCPM value, how can i change it back to a seurat object with counts value? Can i still use above method to turn …
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Hi,
I've encountered an issue after running the cellranger multi pipeline for scRNASeq with a fixed protocol. The pipeline has generated a directory structure with "per_sample_outs", wherein each sam…