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I am running the same code in both Python 2.7 and Python 3.7 and although I get the same communities, the characteristics of the communities differ. For example, the size (in nodes) of each community …
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Hello, I'm trying to use this great tool for cell cluster annotation. But when I test it with the pbmc3k dataset of 10x in Seurat guide, the `findmarkergenes` function always throw error. If I let `t…
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** If this is a question and not a bug report or enhancement request, please post to our google group at https://groups.google.com/forum/#!forum/monocle-3-users**
**Describe the bug**
Psuedotime e…
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Hi!
I mainly analyse my data using SCANPY, but I want to try out CCA batch correction. I have a few .h5ad files with some of my datasets. But everytime I try to read them in Seurat using the functi…
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Hi satijalab,
First of all, your software is great! I have been testing out the recent SeuratDisk v0.0.0.9010 on my Uni's HPC and have attempted to 'convert' Seurat objects into h5ad files and am f…
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I'm using the "scvelo" https://scvelo.readthedocs.io/getting_started.html for scRNA data analysis. It underlying called "scanpy" function "umap" for calculating the coordinates. I tried the release …
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Tried to finetune your GPT2 Russian on russian dataset, but got this problem:
```
Traceback (most recent call last):
File "run_lm_finetuning.py", line 662, in
main()
File "run_lm_finetun…
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**Describe the bug**
One of the tests in gtest is crashing due to an out-of-memory access to the shared memory.
**Steps/Code to reproduce bug**
1. Apply the following patch to the `branch-0.19` b…
hcho3 updated
3 years ago
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Hello,
I want to be able to use sc.tl.rank_genes_groups() to calculate differential expression between two groups of my choice. For example, if I have 16 clusters in my UMAP plot and I want to comp…
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`[9d/de566e] process > bbknn:BBKNN:BEC_BBKNN:SC__SCANPY__DIM_REDUCTION__UMAP (1) [100%] 1 of 1 ✔
[a9/07df14] process > bbknn:BBKNN:BEC_BBKNN:SC__PUBLISH_H5AD (1) …