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Hi, I wonder if there is any function in celldancer which can generate the raw RNA velocity matrix. I intend to compare this method with other RNA velocity estimation method. Thanks a lot.
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### Discussed in https://github.com/aristoteleo/dynamo-release/discussions/423
Originally posted by **Ckenen** September 21, 2022
When I run dyn.tl.dynamics(adata, group="group", NTR_vel=True)…
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Hey,
Thanks for develpoing this good method and also very high quality data! I am wondering what kind of tools did you guys use to get spliced and unspliced counts and does it matter if the tools a…
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Dear all, I have a dataset and I would to split conditions (ko and WT) to analyze separately them. The problem Is that Im not sure if there Is a way to compare in a statistically correct manner the Ar…
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I'm trying to perform RNA velocity with kallisto, bustools and their wrapper kb-python following the instructions in [this R Notebook](https://bustools.github.io/BUS_notebooks_R/velocity.html). But I'…
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Hi,
I am running over the tutorial of 'RNA velocity with kallisto | bus and velocyto.R'.... and I have two lines that I can't run:
`bustools capture -o cDNA_capture/ -c ./cDNA_tx_to_capture.txt -e…
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Hello,
I have tested the velocyto.R package with Pagoda2 as described in tutorials. But I would really like to test it with Seurat2.
How do I create cell embedding, cell clustering, and accurate c…
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...
Dear Team,
I am curious if there is a pipeline starting from Seurat object to CellRank to do the trajectory or velocity ?
I am working with 30 patient samples. it seems I need to start fr…
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Hi,
This is not an issue, but I'm just looking advice on this problem I've been trying (with limited success) to tackle on my own for a while.
First, I've been using salmon for years and I love …
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https://mp.weixin.qq.com/s/j4zezzyiNRhZGKisUWPQ7w
ixxmu updated
3 months ago