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Hi,
First of all, thanks for the great package. However, I do have some questions and issues and I hope you can help me with it.
I have TCRSeq and single cell RNASeq data from 12 samples (3 Con…
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I have the following BAM file, repeat masker GTF and genome GTF.
They are downloadable here:
- [BAM](https://s3-ap-northeast-1.amazonaws.com/stemrim-pub/ewijaya/discuss/velocyto/input.sorted.bam)
…
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Hi,
Thank you for this package. I have been looking for something like this. I tried to use this with my data but I got the following error.
```
Error in rowSums(Ma) : 'x' must be an array of a…
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### Project short name: LungOrganoidsTCR
### Primary Wrangler:
Arsenios
### Secondary Wrangler:
Wei
### Associated files
* Google Drive: [folder](https://drive.google.com/drive/folders/10Bmm…
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Hello everyone. First of all, I'd like to congratulate you on this incredible tool.
In my current project, I need to create cell x transcript matrices for my single nucleus human sample data genera…
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First, I'd like thank you very much for the great work and package you created!
I am trying to run the different steps in the Multiome tutorial (https://scenicplus.readthedocs.io/en/latest/pbmc_mult…
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Hello,
I generated a snap file from cellranger bam output. Then I used snapatac to cluster the cells. However, now when I try to run the runMACSForAll() function, I get the following errors. Is th…
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Hi Aaron,
I used `read10xCounts(..., type = "HDF5")` to load a HDF5 file from CellRanger v3.
I was surprised to get an error when I then ran `scater::calculateQCMetrics()` on the result.
Ultimately…
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Hi,
I have a simple question. I am looking at the .clones.tsv output for the single-cell Mixcr workflow, and there are often multiple clones per cell barcode. Should I just use the first one with …
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Hi Alex,
Thanks for developing such an amazing tool.
I run STARsolo on the single cell RNAseq data.
Since I want to have more insights into two similar genes, I added `--soloMultiMappers Uniform…