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As PSD we want to make the developer experience of enabling/disabling pipelines in WIP identical between SequenceScape and Limber so that we reduce confusion and mistakes
- [ ] The developer experien…
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Hello,
I am very interested to use this tool in my work! I wondered if we had four different biological samples for 10X Multiome (which I've integrated using scRNA and Seurat's integration pipeline),…
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This is a question about the .table file. I understand that LIGER integrates the scATAC and scRNA-seq. What exactly does this .table contain, and how can I generate it from other pipelines (Seruat, sc…
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Hello! Our project is currently focused on burst kinetics, and we found your pipeline can estimate kinetic parameters from nonallele-specific scRNA-seq data. We downloaded nnRNA and have successfully …
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**User story**
As a user of the scRNA Core Donor Pooling pipeline, I would like the LIMS to support bed verification of the transfer from the LRC PBMC Cryostor tube rack into the LRC PBMC Defrost PBS…
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Hi, I have finished scRNA-seq cell annotation in python with standardized pipeline.
I only want to compare the metabolism activity between 3 subtypes.
I want to know if
1.I should convert the h5ad…
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**User story**
As a user of the scRNA Core pipeline, I would like the LIMS to help me prevent 'donor clash' when I am pooling together tubes for sequencing. This means that the pool should not contai…
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Hi @hxj5 , I have a question regarding 10X 5' scRNA-seq data.
For 5' sequencing, the read containing cell barcode and UMI contains part of the transcript https://kb.10xgenomics.com/hc/en-us/article…
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**User story**
As a user of the scRNA Core pipeline, I would like the donor pooling step (into the LRC PBMC Pools plate) to allow only one source plate.
This change is due to the decision being t…
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Hi,
Could you tell me how to get package named "sir" in some notebooks of scRNA-Seq-invivo/analysis_pipeline directory.
I guess that the sir package means sir directory in the scRNA-Seq-invivo/analy…