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This is usually where we try and insist on the necessary pre-requisites explicitly.
For this lesson it might also be the opportunity for providing links to background material which are needed.
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In the code snippet from _"notebooks/space/mapping/moscot_mapping_citeseq2.ipynb,"_ the **MappingProblem** function is used with the spatial_key parameter specified as follows:
> MappingProblem(ada…
AhaYW updated
1 month ago
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Hi Alex,
Thanks for the great tool!
I'd like to plot sequencing saturation like cellranger. I wonder if I can get the accumulating saturation from the bam file.
according to this: https://github…
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> True, most of them are on par with the transcriptomes in the other study- the P. cordata and P. jahnii transcriptomes are the two with the lowest proportion of genes in core orthogroups (but similar…
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Hi,
I'm encountering errors while using SAW to process my stereo-seq data. Could you please assist me in resolving this issue?
**- Below are the errors:**
[ERRO 20240911-19-28-42 p1060618 loa…
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I am having an issue using Scissor to annotate bulk RNA sequencing (of paired tumor & normal samples) with single-cell tumor sequencing.
Here is my code:
```
## import bulk RNA seq data
bulk…
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I'm running STARsolo on FASTq files that were generated from data off a NovaSeq X sequencer. It isn't generating any filtered counts, which I realized is because the barcodes.tsv and matrix.tsv files …
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Dear Treeshrink,
I have a loci.treefile with about 3800 gene trees. An issue arises due to gene trees with "too many taxa" when really, the genes are split in their alignment files due to poor seq…
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There is no hurry for this as Andrew is on his placement at SciBite , but during the RNA Central meeting I said we would export the publications to see if they could be used to improve the gene summ…
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Hi,
Thanks for the great tool.
As the title, I'm wondering if this tool can be applied to simulate single cell Nanopore reads. I'm thinking to generate bunch of transcripts for a gene and attach th…