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Hi Avanti,
I've been trying to figure out the memory bottleneck when using tfmodisco. It turns out the initially dense matrix created by seqlets2patterns doesn't take that much memory with 40k seql…
hy395 updated
4 years ago
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Hi
I run this PhenoGraph tutorial "tutorial_pbmc3k.ipynb"
But the “phonograph.cluster()” function can’t successfully calculate the communities, all the communities are zeros. But there is no error o…
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Hi! I think for what you’re doing, you might consider a community detection algorithm on the high dimensional data (or a bunch of PCAs/ICAs to spped things up).
They serve us very well in the compu…
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Hello- Thanks so much for putting together this useful tool! I've tried both the phenograph clustering and the scanpy clustering, and I've noticed that memory usage creeps up across iterations when I …
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Another error I get and have no idea how to solve is when using the Wilcoxon rank-sum for testing for differential gene expression:
`sc.tl.rank_genes_groups(adata, 'louvain', method='wilcoxon')
sc…
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Would like to see these diagrams be re-implemented in NetworkX if possible
See https://igraph.org/c/doc/igraph-Community.html and https://arxiv.org/abs/1112.4134 and maybe https://www.researchgate.ne…
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As mentioned by @MiguelDLC on #700 , right now the front page always names the faculty where the course is given as "EPL (Ecole Polytechnique de Louvain)". This is of course not adequate when the cour…
Jimvy updated
5 years ago
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Is there full documentation I can access via `?CommunityDetection` or something in the repl? For my application, I'd like to calculate the Louvain modularity for a partition made on a weighted graph, …
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- [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.
- [ ] (optional) I have confirmed this bug exists on the…
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CALL algo.louvain(
'MATCH (n:Account) RETURN id(n) as id',
'match (n1:Account{nodeID:"BDB8106C5276AE4AB67EF8FE9F7E4282"})-[r1:follow]->(n2:Account)-[r2:follow]->(n3:Account)
RETURN id(n1) as source…