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Dear authors,
Thank you for presenting such a great tool, do you consider implementing the interfaces for common tools like Scanpy or Seurat?
Best,
Qian
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Hi,
I have few queries regarding scanpy.
1. As scanpy is using Louvain Leiden algorithms for clustering which optimize modularity 'Q', so how we can access and print modularity funciton?
2. R…
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### Discussed in https://github.com/aristoteleo/dynamo-release/discussions/423
Originally posted by **Ckenen** September 21, 2022
When I run dyn.tl.dynamics(adata, group="group", NTR_vel=True)…
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## Description
...
## Minimal reproducible example
```python
import numpy as np
import os
import scanpy as sc
import squidpy as sq
sc.logging.print_header()
print(f"squidpy=={…
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Hi, I have pre-processed my single cell RNA-seq dataset in seurat with its standard pipeline, including normalization, identification of highly variable features and scaling the data, and then I impor…
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Both of the following code blocks give similar errors:
```
from pybiomart import Server
server = Server(host='http://www.ensembl.org')
dataset = (server.marts['ENSEMBL_MART_ENSEMBL']
…
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Hello,
I followed the installation instructions for the stLearn package as suggested .
`conda create -n stlearn python=3.10`
`conda activate stlearn`
`git clone https://github.com/BiomedicalM…
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Hi,
Can you please create an EasyBuild module for the python package mira-multiome (https://mira-multiome.readthedocs.io/en/latest/getting_started.html).
Thanks!
-Justine
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Hi,
Thank you for developing this helpful package! I am currently trying to optimize the number of clusters for a cell population using your package, but I've encountered an error that I'm having tro…
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hi!
recently read the paper and found the method really convincing and effective!
would you be interested in submitting a PR to scanpy? Had a look at the code and seems pretty straightforward to re…
giovp updated
3 years ago