buildSortedAlexandrovSignaturePatternList {decompTumor2Sig} | R Documentation |
Build and sort the pattern list of an Alexandrov signature in the following way: First according to the base change: C>A, C>G, C>T, T>A, T>C, T>G, then within these categories according to the flanking bases: A, C, G, T.
buildSortedAlexandrovSignaturePatternList(numBases, trDir)
numBases |
Number of bases for the sequence pattern (odd integer). |
trDir |
Logical: use transcription-strand information? |
A sorted list of mutation features (e.g., triplets with base change).
Rosario M. Piro
Freie Universitaet Berlin
Maintainer: Rosario
M. Piro
E-Mail: <rmpiro@gmail.com> or <r.piro@fu-berlin.de>
http://rmpiro.net/decompTumor2Sig/
Krueger, Piro (2018) decompTumor2Sig: Identification of mutational
signatures active in individual tumors. BMC Bioinformatics (accepted for
publication).
Krueger, Piro (2017) Identification of Mutational Signatures Active in
Individual Tumors. NETTAB 2017 - Methods, Tools & Platforms for
Personalized Medicine in the Big Data Era, October 16-18, 2017, Palermo,
Italy. PeerJ Preprints 5:e3257v1, 2017.