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Hi, thank you for nice software. I have a quick question.
Would it be possible to try cellsnp-lite on 10x scRNA-seq & Illumina bulk RNA-seq data from diploid chimpanzee sample?
Thank you in adv…
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I went through both the vignettes that are available. However, I was wondering if there was more on how to generate the .rds files for scRNA (sparsematrix) and scATAC seq (SummarizedExperiment).
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**Describe the bug**
I used cell_data from my snRNA seq data (generated independently using the cellranger and not cellranger-arc). This was added to the cis_object that was generated using the atac …
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尊敬的开发者：
您好！我在分析scBCR-Seq数据时遇到了以下几个问题：
1.当dnbc4tools vdj run开始使用TRUST4（v1.1.1）执行contig Assembly 和annotation时，出现如下报错：
assembly - ERROR - Command failed with exit code 137.
…
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Hi ! I got an error when trying to read the Visium h5ad after cell2location
my script is :
```
# Import modules
import os
# silence scanpy that prints a lot of warnings
import warnings
…
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Hi there,
I am trying to quantify a particular allele in a `scRNA-seq` dataset. I found this allele `A*03:04:01` in `Allelelist.txt` and `hla_nuc.fasta`, but not in `hla_gen.fasta`. Which sequence…
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Hello,
I am using SComatic to compute germline genotypes for known variants in 10x Multiome datasets.
I can get the SingleCellGenotype of scRNA-seq data.
when I run SingleCellGenotype.py on scAT…
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## Description
I encountered a KeyError when running the statistical analysis method in CellPhoneDB with interaction scoring enabled. I want to gracefully handle missing keys by returning np.nan inst…
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Hi, I am successfully using your package with scRNA-Seq data, but finding a possible bug when trying out the `pseudobulk_by` option. Below I show it working fine without `pseudobulk_by` and then fai…
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Dear sciCNV developers,
I have 2 questions about sciCNV regarding control cell selection and multiple baseline feature.
Firstly, I would like to ask if gene expression data from control cells of…