CIBERSORTx p-values

[malonzm1]

Hi,

I've been running CIBERSORTx to analyze some samples. My problem is that for the p-value column all the values I get are 9999. Any thoughts?

Thanks.

[GenomicSeq]

malonzm1 I think this could be a range of issues like low-quality input samples, a signature matrix that's not suitable, low signature genes, or high complexity of input samples. The first place to look would be to check your data quality and make sure it's preprocessed, normalized, and suitable for the CIBERSORTx analysis. The next would be to ensure the signature matrix you're using is right for your data type.

Can you tell us anything more about these samples?

[malonzm1]

Thanks GenomicSeq. The problem was that I hadn't set the permutation parameter. Thanks!