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I have snATAC+GEX from 10X Genomics from one batch of 2 cell lines and 4 genotypes each (WT, negative control, and 2 disease) , Giving me 8 samples. Some had multiple runs, making 10 samples.
I a…
AAA-3 updated
10 months ago
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Hi, I am getting the following error when subsetting my seurat object. I get the same error when trying to use the subset function. Any input would be much appreciated. Thank you.
> sub=SeurObj[,…
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Thank you for the R package!
I'm new to R and have managed to run this vignette https://satijalab.org/seurat/articles/atacseq_integration_vignette.html on the Satija lab website fine, up until:
ge…
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Hi! I've got a PerturbSeq style gene knockout screen with scRNA-seq readout and I was wondering if it was possible to run phemd with either just a Seurat object or with custom embeddings and clusters.…
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Hello Seurat Team,
Fairly new to this, so I apologize if this has been addressed before. Also, thank you for such a good program. I had originally integrated two datasets (2 different conditions) u…
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Hello,
I converted my Seurat objects (scRNA + scATAC) to a Liger object using the "seuratToLiger" function:
data
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https://mp.weixin.qq.com/s/F03vWYgtS9JmQq4D4TyQWw
ixxmu updated
11 months ago
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Hi, how are you?
Can you help me?
After merging two seurat objects, I can't find the layers to overlay the clusters and analyze the expression differential expressed genes across conditions.
c…
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Hi,
I have 26 different samples (single cell datasets, so for me its like having 26 batches). Each cell is classified in 4 different classes across all samples and I would like to compare each of t…
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Hi All,
Again finding the online branch really helpful in analysis of some very large datasets but got an error today I hope you can help with.
As setup for this the object I'm trying to analyze i…