Unable to decompose de novo copy number signatures

[aliahhawari]

I am using SigProfilerAssignment v0.0.24 and have been unable to decompose my de novo CN signatures. I was able to decompose them using v0.0.18. I extracted these signatures using SigProfilerExtractor v1.1.19, signatures in the Suggested_Solution were decomposed. However, when running SigProfilerAssignment v0.0.24 and v0.0.21 to decompose the de novo signatures from the other solutions, an error returned. If I use SigProfilerAssignment v0.0.18, I could decompose and get the results, but only the CNV_Decomposition_plots.pdf is empty (other plots fine).

[marcos-diazg]

Dear @aliahhawari,

Thanks for reaching out. Could you please let us know which error messages you are getting? Also, please check that you are using the latest version also for SigProfilerPlotting (v1.3.8).

[aliahhawari]

Hi Marcos, A snippet of it is as below. I am using SigProfilerPlotting (v1.3.8). I am using SigProfilerExtractor v1.1.19, and was able to extract de novo signatures, and I can see the decomposed solution for the Suggested_Solution. But when using SigProfilerAssignment v0.0.24 to decompose the rest of the de novo signatures, I get this error:

[marcos-diazg]

Thanks for the quick reply. Could you please share the command you are using to run the tool, the JOB_METADATA file, as well as the input matrix of de novo mutational signatures passed to the signatures parameter? Alternatively, happy to follow up by email (mdiazgay@health.ucsd.edu) if you prefer.

[aliahhawari]

Hi Marcos, I'll follow up by email. Thanks!

[marcos-diazg]

Indeed, this problem was caused by an issue with the naming of the de novo extracted CNV and SV mutational signatures by SigProfilerExtractor. This was fixed in the most recent v1.1.20 version. Thanks again @aliahhawari for reaching out.