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Hey,
I would like to be able to see which cell identity maps to which location in my target space.
I followed the pipeline for "Validate localized mapping of individual cells" in the tutorial,
b…
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Human 10X snRNA-seq support.
*Why?* Initially the interest in snRNAseq came from the need to be able to process large cells (i.e. cancer) or oddly shaped cells (i.e. brain neurons) that would not pro…
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**User story**
As PSD, we would like to support Limber plate purpose configuration using the versioned Tube Rack model proposed in Reuse of TubeRacks document.
**Who are the primary contacts for t…
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Cell by bin
Visualize in higlass
Cell by peaks (in BED + snap files)
Annotated peaks (genomic intervals) per cell
Genome-wide (not necessarily tied to a gene)
Our Pipelines:
- [ ] We need to cre…
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Hi, I am looking for some help to solve this issue.
Quick summary: I have tested the input files and I find the bulk_expression_matrix to be the cause of error, but I have no idea what might be the…
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Hello,
thank you for the isosceles package. I was wondering if it was possible to work from nanopore wf-epi2me single-cell pipeline results with isosceles ?
special emphasis about "find_isoswitc…
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I have a quick question about the snRNA-seq data of CCRCC samples that were used in this study. I downloaded the data from https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE240822, following the d…
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### Description of the bug
Missing output file(s) *.Solo.out/GeneFull_Ex50pAS/CellReads.stats expected by process SINGLERONRD_SCRNA:SCRNA:STARSOLO (JW121_E)
Please fix, why the required file is not …
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Dear Aleksander,
Thanks a lot for this pipeline.
I was recently trying ThunderFISH pipeline on example data you provided.
However, the pipeline stuck after cell masking as it stated that
`Ther…
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- [ ] scRNA-seq
- https://support.10xgenomics.com/single-cell-gene-expression/software/pipelines/latest/using/tutorial_mr#runmkref
- [ ] What about scATAC-seq