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The package works by putting different input files into a list and processing them one at a time. This is very time-consuming if a user is processing cutaneous sqaumous cell carcninoma whole genome se…
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Hello,
I would need a short information. Are the reference signatures assigned to mice fully generated in silico based on mouse mutational opportunities?
Cheers
Maria
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Hi there,
I do not know if I understand but you can create as many signatures as you set in the parameter `num.sign`. I am following the tutorial described in [https://cran.r-project.org/web/packa…
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https://doi.org/10.1101/103374
> Translation initiation is a key step in the regulation of gene expression. In addition to the annotated translation initiation sites (TISs), the translation process…
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Hello, and thank you for your tool!
I am able to run CNSignatures with default signatures for a dataset of 74 ultra low-pass WGS (albeit only when I change the distribution from Gaussian to Poisson…
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Dear @xqzou,
Thanks for this very promising tool.
I was wondering if hg38 can be supported for MMRDetect?
The paper mentions that you used hg19 for all analyses, and I can see hg19-specific code sn…
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Hi,
I finished SIgProfilerAssignment and got matrices in the output. Which matrices should I use as input to SigProfilerExtractor? I see it doesn't support MAF files for each samples like SigProfiler…
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When using `cosmic_fit` to assign mutational signatures to my samples, I identified SBS1, SBS5, and SBS19.
I then extracted these three signatures to refit using `denovo_fit`. However, I noticed di…
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I tried to run _resolveMutSignatures_ for a Mutation Counts object with one sample. Error message:
Error in apply(mutCountData, 2, (function(clmn) { :
dim(X) must have a positive length
I a…