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**Is your feature request related to a problem? Please describe.**
A clear and concise description of what the problem is. Ex. I'm always frustrated when [...]
i want to be able to use dorado summar…
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I am fairly new with using scanpy, and so I may be performing this incorrectly. I encountered an error when trying to create a backed AnnData object from an h5ad file, and then logarithmizing the dat…
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Hey there
I'm using tiledb.from_pandas to create a tiledb array from a pandas dataframe.
My question regards the *sparse* parameter of the *from_pandas* function.
My dataframe mostly consists o…
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Hi Rongxin,
I run the following snap-pre command on a bam file, and got the following QC file with mostly 0s. Is there anything wrong with the bam format that I'm using?
```
snaptools snap-pr…
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Hi and thanks for developing this very useful tool!
when i tried to use snapatac2.tl.add_cor_scores(network, peak_mat= data) it gives me error of "'NoneType' object has no attribute 'obs_names'"
da…
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If you dig in their github repository you will likely find the data already summarised for you in form of R script for reproducibility, so you have to avoid the 95% of work in getting raw single-cell …
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```python
data_processor.generate_training_sample(data_mode, sample_list_file, bin_size, proportion)
# data_mode: Smart_seq
# bin_size: 5
# proportion: 80
```
When I analyzed smart-seq data …
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Hi,
Thanks for the awesome tool and package, I have a question regarding reading the `mtx` file format. According to the documentation from [https://broadinstitute.github.io/wot/file_formats/](http…
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hi，i got an erro below,when i run function run_de
r$> DE = run_de(sce)
Error in `$
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Hi,
When i was using TRUST4 for my 10X Fastq files,it reported failed: 139 at ./run-trust4 line 55.
[Mon Apr 8 14:41:02 2024] TRUST4 begins.
[Mon Apr 8 14:41:02 2024] SYSTEM CALL: /home/work1/D…