Cancer signature, Transition/Transversion inclduing tri-nucleotide

Question

[Chirag Nepal]

Hi there,

Is there any tool/script that can determine the cancer signature based on transition/transversion of mutated sequence and flanking 5'- 3'- nucleotide.

For example: Here is the reference figure.

http://www.nature.com/nature/journal/v500/n7463/fig_tab/nature12477_F2.html

I have compiled the data in the required format, but I have not fully understood how they are classified into different signatures.

Any suggestions on how to do this are welcome.

Answer 1

[poisonAlien]

Here -

1. EMu by Sanger
2. SomaticSignatures bioconductor

[Chirag Nepal]

Thanks poisonAlien !!