Question: How to compare SomaticSignatures package profiles with signatures listed by the Sanger Institute
0
2.7 years ago by
jonessara77010
jonessara77010 wrote:

Hello,

I am using SomaticSignatures package to find signatures in my data. I wonder how i can compare my results with signatures listed by the Sanger Institute (Figure 2 in the paper below)?

Signatures of mutational processes in human cancer http://www.nature.com/nature/journal/v500/n7463/full/nature12477.html

Sara

somaticsignatures • 640 views
modified 2.7 years ago by Julian Gehring1.3k • written 2.7 years ago by jonessara77010
Answer: How to compare SomaticSignatures package profiles with signatures listed by the
0
2.7 years ago by
Julian Gehring1.3k
Julian Gehring1.3k wrote:

A comparison to published signatures should be fairly easy if once you have decided on a suitable measure for comparing the identified signatures. If you go with your example of the Kullback-Leibler divergence or the cosine similarity, you can compare the matrix we get from samples(sigs) to the 21 signatures published first on this. They are included in the package and you can access them with data(signatures21).

See also SomaticSignatures: Compare my datas with validated mutational signatures which discussed this before.