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FindClusters has an option for the leiden algorithm, but as far as I can tell it casts the adjacency matrix to a dense matrix prior to generating the graph. I assume this is required given the way lei…
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Hi,
I'm getting the following error when trying to initially import scvelo through `import scvelo as scv` (currently running scvelo 0.1.16, scanpy 1.4, numpy 1.15.4).
Any help would be greatly appr…
PattF updated
5 years ago
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Dear all,
I am receiving the following runtime warning when I search for markers within my clusters using
`sc.tl.rank_genes_groups`
> RuntimeWarning: invalid value encountered in log2
rank…
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I am trying to use your amazing R package for an analysis comparing brain cell types between four data sets and with version 3.0 of Seurat I get different answers when I run the same "FindNeighbors" a…
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Hi, when I try to find clusters using 'runCluster', I get the following error:
File "/Users/smorris/snaptools/bin/snaptools", line 36, in
from snaptools.parser import parse_args
ImportError: N…
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Student application period has just started, so it's about time for us to come up with some GSoC ideas.
We can reuse some from the [last year](https://cyber.harvard.edu/gsoc/MediaCloud):
* **Bui…
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Hi,
I have been using cytofkit for a while and I have noticed that when I try to analyze data with merge method = FIXED and one or more of the FCS files has a lower number of events than the specif…
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Hi dyno team,
After managing to run dyno on our HPC, I am running into a weird dependency issue when trying to run "projected_paga" on the test dataset. The same code works fine when using a differ…
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Thanks for your work on the windows fix for HDF5! I've got the package up and running and am able to run the examples. However, I'm running into the following error when I try to run the `ti_paga()` o…
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**Describe the bug**
When working with cuDF DataFrames that have Strings, GPU memory is not fully released after deletion of the cuDF DataFrame.
**Steps/Code to reproduce bug**
```python
# ins…