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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
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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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Hello,
I am trying to run decoupleR but have just encountered an error after updating to the most recent version today when using run_ulm or run_mlm:
```R
sample_acts
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Hi!
I'm not very familar with GRN, I got some questions after reading GENIE3 vignette.
1. Is that sample number matters? What's a proper sample number?
2. Is the treat method of sample matters?…
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What do you recommend to try out for "big data" but for RNA seq instead of single cell?
mdanb updated
2 years ago
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Hello!
I've been having issues adapting bulk rna seq data into cellchats pipeline. I want to compare the bulk rna sequencing reads of three purified celltypes with one purified celltype, and find w…
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Hi,
I have some some bulk ATAC and RNA seq in which I wanted to identify some DORCs. Is it possible to use the dorc function in this kind os data (ie importing my bulk rds into the objects)? Of cour…
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I have a relatively large bulk RNA seq dataset (~ 1300 samples, from ~70 experiments) that I'd like to correct for significant batch effects. Is it valid/possible to apply BERMUDA to my dataset? Inste…
mdanb updated
2 years ago