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Hello loomR team!
I'm using loomR in order to work with loom files in R. I'm currently working with the outputs of velocyto from two different BAM files and would like to merge them. However, using…
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Hi
I have a plot after running Velocyto using Seurat.
[Filtered_cells_S1_velocyto_dim20.pdf](https://github.com/satijalab/seurat-wrappers/files/4181098/Filtered_cells_S1_velocyto_dim20.pdf)
I wan…
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End of log file:
```
2020-07-20 22:15:40.884+0000 INFO [o.n.k.i.t.l.c.CheckPointerImpl] Checkpoint triggered by "Scheduled checkpoint for time threshold" @ txId: 99224 checkpoint completed in 9s 979…
olegs updated
3 years ago
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Hello there Pigx team!
I'm a junior bioinformatician in charge of our research group analysis and I'd like to test Pigx for analyzing some Fastq files for RNA velocity estimation (I was originally…
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- [x] STAR solo + CB/XC tags
- [x] http://velocyto.org/velocyto.py/tutorial/cli.html#running-velocyto
- [ ] merge looms: loompy??
- [ ] Seurat 3
- [x] docs
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Hi, I am trying to merge several Seurat objects includes RNA velocity, and here is the error:
Error in GetAssay.Seurat(object = object, assay = assay) :
RNA is not an assay present in the given…
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Hi:
Thank you for the helpful tool.
I have sequenced two data sets (WT vs KO) using 10 x genomics. My question is can I estimate the effect of gene perturbation in the KO data set. My previou…
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Hello,
Thanks for great tutorials, I am currently following your slingshot tutorial and I am running into an error when running the rand_forest line.
here is what I get :
model %
+ set_engine…
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Hello,
I am following the RNA velocity tutorial (https://www.kallistobus.tools/kb_velocity_tutorial.html); I have successfully built the Linnarsson index, but am running into an issue when generat…
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Hi,
Thanks for developing the great tools and continuing having new additions.
My question is how to properly implement RNA velocity to Seurat objects. Specifically, what reference should be use for…