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Hello,
Thank you so much for developing the fascinating tool, which has been incredibly useful for my research!
I am inferring malignant cell fractions through CNV and then performing deconvolut…
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Hello,
I really enjoyed your paper (great method!), and I am applying spaCET for deconvolution of a lung cancer ST Visium data set. For validation, I would like to know how to find the marker genes …
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Hi authors,
Compliments for the great tool!
Reading the paper in which you present MD-ALL I focused on the deconvolution of bulk RNAseq data using CIBERSORTx and a custom single cell reference.
I u…
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It is known that the seqFISH data set consists of 6 cell types in 71 spots and with 10000 genes. I would like to benchmarking the deconvolution tools using seqFISH as the groundtruth. csv
how to form…
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Hi
I have been recently researching spatial deconvolution and found your paper and code to be extremely helpful. However, I encountered some issues when attempting to use the run_deconvolution func…
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Hi @roramirezf ! thanks for providing the reproducibility code for your paper!
I would like to use the cell2location deconvoluted cell types expression from the spatial data.
(https://github.com/s…
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Thank you for creating such a beautiful tool. I have a question regarding the deconvoluted results
What are "unidenfitifed cell typs" and "unknown macrophages" are these from the reference cell typ…
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Thanks for the wonderful tools.
I ran the tool on our tumor bulk RNAseq dataset and found the size of the *_report.TSV files vary a lot. Some samples have many more TCRs (Both types and reads) while…
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Thank you for your hard work：I have re-installed the "Mime" package, but the following error appears, do you know how to solve it?
> devo >> Running xcell
[1] "An error occurred: unused arguments …
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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…