defaultErrorProb {ChIPsim} | R Documentation |
For each nucleotide this function provides probabilities indicating how likely it is to be replaced by any of the other nucleotides should a sequencing error occur.
defaultErrorProb()
The probabilities used here are the ones determined by Dohm et al. for Beta vulgaris. They should be more appropriate than a uniform distribution but the use of species specific rates is recommended where available.
A list of four vectors with replacement probabilities for each nucleotide.
Peter Humburg
Juliane C. Dohm, Claudio Lottaz, Tatiana Borodina, and Heinz Himmelbauer. Substantial biases in ultra-short read data sets from high-throughput DNA sequencing. Nucl. Acids Res., pages gkn425+, July 2008.
defaultErrorProb()