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Hi,
As I was reading for ramwas I saw that you mentioned we could apply ramwas for other data.
I am interested in using ramwas for cell deconvolution of Bulk RNA-Seq data, but I could not figure ou…
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Hi,
I have come across the need to analyse GeoMx data that is generated in two different instances. I have successfully run your tool in two separate instances but as these two projects are related…
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To test CDSeq, I used counts from published bulk RNA-seq of human skin (accession numbers below). Gene-level counts were used as input. Surprisingly, estProp from the output always distributes the pro…
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Hi,
Thank you very much for putting together this code.
I would like to better understand when Bulk2Space might help versus when there are limits to applicability to Bulk2Space, following a jour…
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Hi,
I have bulk RNA-seq from islets cell populations (alpha, beta, delta cells etc.), and am interested in analyzing the content of each sample.
For example, I would like to know for a sample lab…
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Hi, I would like to try this approach on some dog data (B-cells Bulk RNA-seq) before/after treatment. What would be an example pair of input files for this? Thanks.
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Hi,
This is more naive question as I do not have experience in SNPs.
I have 2 cell-lines scRNAseq data, combined sequenced. Now would like to separate using cellSNP (& vireo).
I got bulk RNA-se…
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Hi,
I'm learning how to use MuSiC2. When I'm running the sample code in tutorial, an error happened to me. So, how to deal it.
///
> # music2 deconvolution
> set.seed(1234)
> est.prop = MuSiC2:…
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Hi, mikelove, I used to apply DESeq2 to analysis bulk RNA-seq dataset, where we can correct for the batch effects by including them in the design matrix of DESeq2. further, by combining zinbwave with …
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Hi Damien,
I really appreciate your small rna seq workflow. I am trying to test it for a paired small rna set to bulk rna set.
I am running into an error when I initialize the program as per yo…