All Questions
6 questions
1
vote
2
answers
877
views
How to calculate cell type percentage in every sample
I have a Seurat object (metadata) with the single R samples consisting of cell types and sample types columns. I am trying to make a table that has a sample and percentage of cell types for each ...
1
vote
1
answer
290
views
What is the best way to address the question of doublets and multiplets in a single cell RNA seq data set?
I have attached a histogram plot of the number of genes per cell in a single cell RNA seq data set of lung endothelial cells. I do not find a bimodal or multimodal distribution of the number of genes ...
- 547
0
votes
3
answers
3k
views
Which correlation method to compute the correlation score between different clusters of Sc-RNAseq data?
I'm analyzing single cell rna-seq data and trying to compute the correlation score between different clusters. Wondering how to choose the correlation method("pearson" (default), "kendall", or "...
- 39
2
votes
4
answers
18k
views
how to merge more than two sample in Seurat?
I would like to merge more than two sample in the Seurat, and the mergeseurat can only merge two sample. So what should I do now. The screenshot is my script.
- 441
0
votes
1
answer
957
views
Cluster is split in 2-3 locations on tsne plot - Suerat
I am running a single cell dataset (count data - exon) through Seurat. After running tsne I see a cluster (13) split in 3 different locations on the plot. Here are the commands I am running:
...
- 133
4
votes
1
answer
3k
views
Subset on multiple genes in Seurat
I know that I can do subsetting on just one gene in Seurat:
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- 2,578