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xuranw / MuSiC

Multi-subject Single Cell Deconvolution
https://github.com/xuranw/MuSiC
GNU General Public License v3.0
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perform anova on deconvoluted single cell output #84

Open complexgenome opened 2 years ago

complexgenome commented 2 years ago

Dear music developers,

I got deconvoluted output from MuSic R library. I am interested in performing differential gene expression of the deconvoluted result.

I have following outputs upon deconvolution: Est.prop.weighted, Est.prop.allgene, Weight.gene, r.squared.full, Var.prop

I am interested in two things:

1) I have per subject proportion within in each cell type. I have weight/count per gene within each person. However, I do not know the expression of a gene from a certain cell type in any individual. How can I extract that information from MuSic output?

2) I am interested in using anova on the music output. https://xuranw.github.io/MuSiC/reference/Anova_info.html

How do I proceed for both these tasks?

Thanks.

complexgenome commented 2 years ago

@xuranw can you assist?

sam0per commented 2 years ago

@sariya how did you solve it?