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GSE145173 - Decoding myofibroblast origins in human kidney fibrosis
### Project short name:
Kramann-Human-Smartseq2
### Primary Wrangler:
Arsenios Chatzigeorgiou @arschat
### Secondary Wrangler:
…
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Hi
I am working with Takara Smartseq4 "reversely stranded" libraries. Surprisingly most of the samples have 2-10% mapping rate and everything remaining is "too short to map". I checked read length a…
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I am currently trying to run both your scTransform and standard workflow to integrate some datasets that were generated with SmartSeq2 and 10X platforms. For the SmartSeq2 datasets, what form should I…
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Hi @cdedonno - we are running into the below error when we try to run the tutorial on an AWS GPU:
`RuntimeError: indices should be either on cpu or on the same device as the indexed tensor (cpu)`…
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Hello, I ran into the problem with detection of tdTomato in created .loom file. I added tdTomato into my ref genome. I am able to detect it in raw output from cellRanger. However, after running velocy…
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Hello, I am processing single cells obtained by SMARTSEQ. I have created a 3-columns tsv file with cell-id and the two read pairs (`samples`). I launched `kb count` like
```
kb count -t 8 -o $OUTD…
dawe updated
6 months ago
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### Project short name:
HumanLungCellAtlas2020
### Primary Wrangler:
Ami --> Ida
### Secondary Wrangler:
Arsenios
### Associated files
* Google Drive: [folder](https://drive.google.com/drive/fol…
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First of all, thank you for this incredibly useful package. We get a lot of use out of it.
For large matrices (where `too.big = TRUE`), I've run into an issue where you can't force `--useMtx` to be…
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### Description of feature
Hi, I would like to add smartseq and smartseq2 support to the pipeline. StarSolo [supports it](https://github.com/alexdobin/STAR/blob/master/docs/STARsolo.md#plate-based-sm…
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### Project short name:
lungCellularCensus
### Primary Wrangler:
Ida
### Secondary Wrangler:
### Associated files
* Google Drive: https://drive.google.com/drive/folders/1LXtmfaRLMLGPkc1Zq_7dCd5N…