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I'm now trying to install velocyto.R in Rstudio on windows. I managed to install pcaMethods using
**if (!requireNamespace("BiocManager", quietly = TRUE))
install.packages("BiocManager")
Bioc…
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In the tutorial (http://htmlpreview.github.io/?https://github.com/satijalab/seurat-wrappers/blob/master/docs/scvelo.html), after converting the loom object into Seurat object, we set "spliced" as "RNA…
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I wonder which bam to be used in for RNA_velocity analysis,thanks!
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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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Hi,
Appreciate the nice package,
I was wondering if there is an option to plot RNA velocities on a 3D UMAP or get their calculated matrices. If not, what direction would you recommend for the …
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In the tutorial for RNA velocity analysis (http://htmlpreview.github.io/?https://github.com/satijalab/seurat-wrappers/blob/master/docs/scvelo.html), which was what @mojaveazure in issue #3423 advised …
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Hi,
I am now using kb python to obtain splice/unsplice count from my 10X V3 single cell RNA sequencing data. It works but when I load the adata.h5ad file in the scVelo, I found that the barcodes i…
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Hi, I am trying out the `test_data` using `stereoRun_singleLane_v4.1.0.sh`. However, I failed to find the unspliced counts among the outputs. Do I need to modify `stereoRun_singleLane_v4.1.0.sh` to g…
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Hello,
Thank you for amaizing package. I am using the 3D cone to represent UMAP coordinates of a single cell RNA experiment (were each cell get represented in the 3D space determined by the UMAP) a…
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How can I use the resutls from RNAvelocity_matrix directory? What software or R package should I use to load and process the RNA velocity resutls? Thank you very much for your valuable time!