ngvananh2508

**Describe the bug** When I ran this command: import diffxpy.api I got this error:  Could you help me with this issue? Or could you let me know the version...

Ambient RNA removal and doublet detection for Smart-seq2 dataset

1

**Question** I have a set of 4 Smart-seq2 sc-RNA seq datasets. Should I do the ambient RNA removal and doublet dectection steps? In the tutorial, two steps above are mentioned...

Convert log_eFC to log_2FC in differential gene expression chapter

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The formula to convert coef from log_eFC to log_2FC is not equal to coef/log_e(FC). Let x be the fold change -> coef = log_e(x) -> e^(coef) = x -> coef.log_2(e)...

Pseudotime construction

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In the part 13.4.4 Pseudotime construction, there is a paragraph: The differentiation hierarchy in bone marrow is well understood. However, it is only know that the developmental process starts in...

AttributeError: 'numpy.float32' object has no attribute 'log'

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### Describe the issue: When I ran these code lines, it appeared this issue: This is the adata_pb.X array:  Thank you so much for helping me! ### Reproduce the...

**Describe the bug** In GSEA chapter, when I import scanpy 1.9.1 (the package that you deploy in the recommended environment), it emits the error above. This can be gotten around...

### What kind of feature would you like to request? Additional function parameters / changed functionality / changed defaults? ### Please describe your wishes Hi, I want to change the...

Hi, When I practiced this chapter, I figured out that you made some errors on this text: First, the link leading to full adata dataset is not available. Second, you...