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Have you considered the applicability of Milo to cancer cell data? I notice in the journal article a variety of scenarios (e.g. cirrhotic liver, thymus), but not cancer. I suppose that it is because o…
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Exon annotations cause conflict in velocyto, presumably related to issue #73 there: https://github.com/velocyto-team/velocyto.py/issues/73
```
% velocyto run10x sample1 human_GRCh38_optimized_v1…
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First of all, thank you very much for your work!
I attempted to use `sEV_recognizer` to identify sEVs in scRNA-seq data, but the scores of the identified sEVs are all the same. Is this a normal phen…
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Right before the [Single-cell protocols](https://www.sc-best-practices.org/introduction/scrna_seq.html#single-cell-sequencing-protocols) chapter, there is a "ADD A FIGURE HERE" note.
![image](https…
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Hello there, I am trying to analyse some aligned scRNA-Seq data on R studio. When I try to run Seurat I keep persistently receiving this error, which has now occurred when I start a new session in R s…
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Hello! I appear to be running into issues with initializing the correct file paths/sample file. I am a relatively new python coder, so my apologies if I am providing insufficient information. Please l…
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We were considering adding cycle-consistency loss and VampPrior as described in [Integrating single-cell RNA-seq datasets with substantial batch effects | bioRxiv](https://www.biorxiv.org/content/10.1…
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Dear Devs,
I am having some issues loading the output of `alevin-fry` scRNA-seq quantification into R; I have used all the following packages in the past without issue. I get the following error wh…
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https://mp.weixin.qq.com/s/VUEs-cP0hjGJnR6aW1WcVw
ixxmu updated
4 weeks ago
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If you dig in their github repository you will likely find the data already summarised for you in form of R script for reproducibility, so you have to avoid the 95% of work in getting raw single-cell …