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I recently stumbled across the paper: https://www.nature.com/articles/s41598-019-41695-z
**From Louvain to Leiden: guaranteeing well-connected communities**
V. A. Traag, L. Waltman & N. J. van E…
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## Expected Behavior
Leiden algorithm classifies a network that uses filters (Giant Component and a Partition attribute). This works fine for both Modularity and Gervain-Newman.
## Current B…
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Leiden University advanced the community identification algorithm first developed by Universite catholique de Louvain in the paper [From Louvain to Leiden: guaranteeing well-connected communities](htt…
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Hi!
I am currently running FindClusters() on a Nanostring 2.4M dataset. Ideally there should be ~10 major clusters but over 120K communities was firstly identified, with most of the are singletons …
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When dereplicating sequences, it is crucial to cluster genomes that significantly overlap each other (i.e., high bidirectional coverage) to avoid clustering sequences where one is entirely contained w…
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Hi,
I was trying to use a wrapper function for the leiden algorithm, **cluster.graph**. It is not clear to me how to obtain an input adjacency matrix from a SCE/ACE object. I am currently using …
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# ARIbrain: Interactive clustering with spatial activation guarantees using all-resolutions inference
***By:
Xu Chen, Leiden University Medical Center & Leiden University, Leiden, Netherlands
Woute…
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**Describe the bug**
Similar to issue #241 and with the same root cause. The existing code only handles int and string type nodes, but networkx nodes can also be other Python hashable types.
**To …
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Hey all!
Amazing package :). I had a question regarding the arguments for `tumor_subcluster_partition_method`. Over there you have several methods to choose from for the subclustering. However, only …
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Hi,
I'm trying to use `diffxpy` with an AnnData object that has been clustered using the Leiden algorithm.
When I run the following command:
`wilcox_test = de.test.wilcoxon(data = batches_…