SigProfilerExtractor
scanpy
| SigProfilerExtractor | scanpy | |
|---|---|---|
| 1 | 5 | |
| 146 | 1,768 | |
| 2.7% | 2.3% | |
| 3.5 | 9.3 | |
| 17 days ago | 3 days ago | |
| Python | Python | |
| BSD 2-clause "Simplified" License | BSD 3-clause "New" or "Revised" License |
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SigProfilerExtractor
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Any good tutorials/guides for cancer mutation analysis?
Ludmil Alexandrov's tools may be a better modern choice for real data though: https://github.com/AlexandrovLab/SigProfilerExtractor
scanpy
- Renaming Genes for Scanpy Plot
- Useful Python Decorators for Data Scientists
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[Scanpy] Installation issues related to pytables
Upon searching stack, I still do not understand the exact issue, as the file "hdf5extension.cp38-win_amd64" is present within C:\Users\username\anaconda3\lib\site-packages\tables\. Would anyone be able to explain the problem and any potential circumventions?
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standardize/normalize seq data
I would suggest you explore with SCANPY and verify if your batch labels generate a strong separation in your samples (PCA, tSNE, UMAP). If you then need to correct for batches, according to how simple/complex they are, you can choose a tool from this benchmark.
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Flipping one histogram below the axis.
I am plotting 2 1-D histograms on top of one another using a hold on command. Is there a way to have one histogram be upside down, and then to flip the entire plot 90˚? I am looking to create a violin plot https://github.com/theislab/scanpy/issues/1448 on my own, having one histogram on the left, and one on the right.
What are some alternatives?
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