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Hi,
I want to making a signature matrix using isolated cells, where the isolated cells have been sequenced using the bulk approach instead of the single-cell approach.
I am going to use sample 1-…
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**User story**
For clusters / cell types / cell sets which have been defined upstream, differential expression / accessibility can be computed for each cell set by comparing to all (or all other) c…
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Dear EPEE team,
First of all, thank you so much for the great tool, EPEE.
I recently run EPEE tool on my gene expression data from RNA-Seq (2conditions/3 replicates each) and using an appropria…
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### Please link to the GitHub Discussion for this proposed analysis.
https://github.com/AlexsLemonade/OpenScPCA-analysis/discussions/722
### Describe the goals of this analysis module.
To use CellT…
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Hello,
I've been using the differential transcript expression analysis well, until recently I've been trying with a different dataset and I keep getting an error "names" attribute[2] must be the s…
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1. 1st figure: will be the general workflow for the whole analysis.
2. 2nd figure: the main figure
A new panel in figure 2 could be a Venn diagram that counts how many genes including outliers…
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Please allow export of differential expression results - the list of genes together with statistics (p-value, average and stdev in each group).
CC: @alokito
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Hi,
Perhaps a very silly question, but I am very new to the field of scRNAseq analysis (and R in general). I am currently getting familiar with Monocle 3 after having worked with Seurat, mainly to…
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When I use function sc.tl.rank_genes_groups(adata, 'Cell Type', method='wilcoxon', pts = True,tie_correct = True) , 'Cell Type' only contains 2 groups, I want to check adjusted p values, then I use pd…
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@skchronicles said
> @kopardev
> Yes, I will look into it.
>
> I was also thinking we should create a custom set of references for the ci workflow.
>
> Here is what I am thinking:
>
>…