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Hi @michalk8,
I cannot show ipl plots in the `bokeh` interactive servers. So far, the latest attempt shows a white webpage where the expected UMAP is generated according to the terminal log, but it…
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Hello,
Thank you for your pipeline.
The first question is that the paul15 file is not available from the link you provided.
The second question is, since I cannot find the paul15 file, I used…
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### Please make sure these conditions are met
- [X] I have checked that this issue has not already been reported.
- [X] I have confirmed this bug exists on the latest version of scanpy.
- [ ] (option…
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this is being run within the recommended container
for `snap.pl.umap(data, color='leiden', interactive=False, height=500)`
```
------------------------------------------------------------------…
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Dear Linnarson team,
First of all, thanks for the great dataset.
I was wondering, if there is any possibility to provide a loom file with dim reductions (PCA, tSNE)? Especially these dim reducti…
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I was trying to follow the tutorial: ‘Create some validation plots of various analyses with and without cellbender remove-background. One convenient way to do this is in scanpy and storing the raw cou…
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Plotting data and color it using categorical/string values (*e.g.* `scv.pl.scatter`, `scv.pl.velocity_embedding_stream`, etc.), the argument `color_map` is ignored. If the colors have not yet been…
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This is a straight translation from R. I’d recommend making this pythonic:
- Don’t use mathy variable names or dict parameters. Use expressive names in lower case, especially for the 3rd parameter …
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Hello!
I'm trying to install diffxpy on a docker.
I have already installed the batchglm and checked running `python -m unittest` with success.
I'm encountering the following error:
What am …
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This is a first attempt at deriving a data format specification.
Once we figure out some of the APIs, we could include these in our config.vsh.yaml definitions (similar to https://github.com/openpr…