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### Description of the bug
Hi! I was trying to download a non nf-core nextflow pipeline using `nf-core download`, which I understand could (or should?) work. However when I tried this for `epi2me-lab…
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### Description of feature
Hello, thanks for the great work with this pipeline. I would like to try to use this pipeline to call somatic mutations in single cell rna-seq data. I have my own WGS refer…
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### Ask away!
To whom it may concern,
I am a user of wf-single-cell and I have some questions regarding the internal workings of the pipeline, specifically concerning the barcode and UMI correctio…
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Hi Mflamand,
I'm running the scDART-seq data using Bullseye's pipeline, and I have some confusion: How do I get the matrix of cells and sites when there is no barcode information in the final result …
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Hi
This is Joe from Cedars-Sinai Medical Center. I am currently using your scLVM on single cell RNA-seq data to reduce the cell cycle effect. This is a very nice pipeline on single cell data analysis!…
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### System Info
- `transformers` version: 4.42.2
- Platform: Windows-10-10.0.22621-SP0
- Python version: 3.10.14
- Huggingface_hub version: 0.23.4
- Safetensors version: 0.4.2
- Accelerate ver…
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I'm a new user of LIANA+ and currently working with a large dataset that includes approximately 300 samples (around 1.5 million cells). I have access to 4 GPUs, each with 48 GB of memory. I’m consider…
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Hi, Thanks for writing such a complete MAN page! I have a quick question, I have a total of 6 samples, and all of them are single cell Nanopore libraries. I'd like both the transcript and gene quantif…
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https://github.com/Donders-Institute/PRESTUS/blob/05146df2186feee700709b48727170f2c47fbc5b/single_subject_pipeline.m#L50
The main function adds additional paths as strings (?). I keep using cell st…
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### What kind of feature would you like to request?
Other?
### Please describe your wishes
This would speed up normalization