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Immunedeconv CIBERSORT

Hello,

I'm doing some deconvolution analysis with Immunedeconv package embedded function for CIBERSORT deconvolution. The source code and LM22 has been extracted from CIBERSORT itself. However, I realised the results from Immunedeconv gives me P value 9999 and there is no parameter function to annotate desired permutation under immunedeconv (apart from array, absolute and absolute_method). The p value results also vary when I try to run using web server for CIBERSORT.

Any ideas why or able to reproduce the same results, but using local R server?

Thanks!

p-value immunedeconv cibersort
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written by dy001 • dy001

1 answer

The 9999 is the default set of p value in CIBERSORT, there may be something wrong in your data. You need to check it.

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written by Jeason • Jeason

I doubt it is to do with the raw data of my dataset. I applied onto the CIBERSORT web and the p value output is not 9999.

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written by dy001 • dy001

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