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Hi @joschif !
Thank you for this helpful package :) I have a couple of questions!
To start, I will just say - I have already tested a lot of parameters in my multiome dataset and can use the def…
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Hi, I am currently experiencing an error with the CreateCelestaObject step. When I run CreateCelestaObject() I get warnings that my marker expression is potentially too sparse:
Marker: Cd19
[1] …
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We list the proteins present in a structure, but not the ncRNAs. For example, this structure has U2 snRNA. I presume these have RNACentral IDs , so we might be able to get these IDs too from a mappi…
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An interesting point was raised by Aya: how can we be sure the plasmid contained in the mother cell will be transferred to the minicell?
It was then suggested that we look at the iGEM Vilnius-Lithu…
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only rpb11 has this.
Check whether these are staying or going
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Hi,
I am new to differential expression. I am analysing a single cell dataset with three different conditions and ten cell types. I receive the following error as one cell type in one condition doe…
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Hi,
I ran into an annoying issue when running Stringtie (version 1.3.4d) using alignments from Hisat2 (version 2.1.0).
This is an IGV screenshot illustrating the problem. The upper panel shows…
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Dear miRTop colleague,
We are inviting you all to participate in an isomiR research project. We have been talking for some time about isomiR naming conventions. One of the potential challenges wi…
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Sean writes:
> For RNA cells, there will be two clusters, following those two patterns. For ATAC cells, there will be one cluster, following the pattern `leiden-UMAP-{uuid}-#`. For CODEX cells, the…
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Hi, I was wondering if I could use Libra (specifically with setting: de_family = "pseudobulk", de_method = "limma", de_type = "voom") with a scRNA-seq dataset (Seurat) in which I have let's say:
- Tw…