issues of applying sig_extract

[xiw588]

Hi Shixiang,

I am trying to apply sig_extract but failed with the following error message. The interesting thing is I can apply extractSignatures() successfully. What I need is to get the absolute mutational signatures rather than just relative proportions, but I think results from extractSignatures() cannot really provide this, right? Thanks a lot!

mt_sig <- sig_extract(mt_tally$nmf_matrix, n_sig = 3, nrun = 5, pConstant = 0.1 )

Error: NMF::nmf - 5/5 fit(s) threw an error.

Error(s) thrown:

• run #1: NMF::run - onInit/Update/Stop method for algorithm 'brunet': unused argument(s) 'pConstant' Timing stopped at: 4.593 0.037 4.655

[ShixiangWang]

@xiw588 Please remove the pConstant setting. The option has long been outdated.

https://shixiangwang.github.io/sigminer/reference/sig_extract.html