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I'm also getting a similar error for bulk-RNA data,
```
> bam_files
MCAO1 MCAO3 MCAO4 Shame1
"../…
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The dataset types in the gEAR portal are nice and tidy:
```
mysql> select dtype, count(dtype) from dataset group by dtype;
+-----------------------+--------------+
| dtype | coun…
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Hello,
Thank you for amazing tool.
I am new to CNV analysis using RNA-Seq.
Is it possible to use CaSpER for a single bulk RNA-Seq sample such as a tumor sample from a single patient?
Thank you…
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Hello,
First I would like to thank you for developping BayesPrism v2.2. It allows me to use large atlases as reference for deconvolution.
However, when I tried to use it, I got an error for some…
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[ ] Add a slide on publicly available data, how to access it and how to clean it up (maybe share a script for clean up?)
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Hi @federicomarini
Thanks a lot for the great package.
In the "counts overview tab", I wanted to seek guidance on the recommended cutoff to use when filtering based on "threshold on the row mea…
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Hi all,
I am really interesting in using your R package to deconvulte some of my bulk RNA-seq data. I was just trying to use the example data which is loaded with the package but I have already encou…
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Thank you very much for developing the excellent ATAC-seq package.
I'm encountering an issue with the part “Running footprinting scores”. I'm following your tutorial and using my own single-cell RNA…
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Hello, thank you for providing such a convenient method, I would like to know if the input bulk transcriptome data must be count? Can I use tpm as input?
thanks