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Hi Anna,
I just wanted to try out the shiny new episcanpy version. Unfortunately I found that it is incompatible with the current scanpy realease. This is because of conflicting requirements.
Ep…
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Dear authors,
I encountered this error when running mofapy2 (v 0.7.0) via muon.
It reached this point:
```Model options:
- Automatic Relevance Determination prior on the factors: True
- Autom…
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- download a data of choice from 10x genomics with `sc.datasets_visium_sge()` (you can browse them [here](https://support.10xgenomics.com/spatial-gene-expression/datasets))
- run the scanpy tutorial,…
giovp updated
3 years ago
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> In progress: we are perfecting the functionality to add a precomputed KNN graph (for example constructed with Seurat or scanpy) to the graph slot using the adjacency matrix.
It has been in the vi…
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Hi there,
Having an issue when I try to run BBKNN without annoy. Had this error, then freshly installed everything in a new conda environment, I'm still getting the error passing from pynndescent whe…
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If I load an H5AD in backed mode (`backed="r"`), and call `score_genes()`, it will fail. Works fine on the same dataset loaded in memory cached mode.
Example (run with scanpy 1.4.2, anndata 0.6.2…
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Some issues I found in the current implementation:
1. Some implementation omits customized preprocess steps: **DeepST**. did @shdam find anything from the methods you worked on?
2. Some impleme…
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I am aware that similar issues exist but none of them solves my problems.
I used a toy example:
```
X,y = shap.datasets.boston()
model = GradientBoostingRegressor()
model.fit(X,y)
explainer = …
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As a scanpy user who has already computed differential expression via `scanpy.tl.rank_genes_groups` and saved the results to `.uns['rank_genes_groups'`], I want to view these results in cellxgene so t…
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When I load the f_final_loom into a `scanpy.AnnData` object, I get the following error.
`adata.obs.drop(['Embedding','Embeddings_X','Embeddings_Y','RegulonsAUC'],axis=1,inplace=True)`
TypeError: …
clg12 updated
6 months ago