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Congratulations on the wonderful-looking update on VIA.
This is my first time trying to use VIA (or StaVia), and it seems like the tutorial for [scATAC-seq Hematopoiesis] link is not working corre…
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Hi TradeSeq team! I think you guys developed an awesome tool, and we were discussing recently whether and if we could interface to it from CellRank. CellRank defines trajectories through a soft assign…
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@stemangiola and I can provide materials and advice
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Hi, I notice that you have the ability to simulate multiomic data, but I have some questiosn about the simulated data.
![image](https://github.com/ZhangLabGT/scMultiSim/assets/43333475/8daf4946-32b…
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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 everyone,
I just finished 2 sets of Gromacs simulation for my system (RNA+ligand). The first set has only ligand (20 runs). The second set has both RNA and ligand (30 runs). Each simulation is ru…
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When I try to run the code below on the tutorial, I get this error.
```vk.compute_transition_matrix()
```
```Computing transition matrix using `'deterministic'` model
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**Problem summary**
I am trying to annotate a UMAP plot with arrows corresponding to the RNA velocity vectors, as outlined in the [RNA velocity](http://bioconductor.org/books/release/OSCA/trajectory-…
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I have used RNA velocity before without any problem. However, when I tried to analyze a new set of data with the same code, I cannot get the loom file generated. There is no informative information in…