Member Function
AFScore
Constructor
AFScore(kmerSize, bgModelOrder, outputFile, verbose)
AFScore(kmerSize, bgModelOrder, revCom, outputFile, verbose)
AFScore(kmerSize, bgModelOrder, revCom, mismatch, mismatchWeight, outputFile, verbose)
Parameters
kmerSize
Size of kmer
Types: unsigned
bgModelOrder
Order of the background Markov model
Types: unsigned
revCom
Scoring of reverse complements words [''/'max'/'min'/'mean'/'both_strands'/]
Types: String<char>
mismatch
Includes words with one mismatch into the word neighbourhood. [0/1]
Types: unsigned
mismatchWeight
Weight of word counts with one mismatch
Types: double
outputFile
When specified, all normalised and standardised kmer neighbourhood counts will be written to this file for every sequence
Types: String<char>
Default: ""
verbose
This option will report progress to standard output.
Types: bool
Default: false
Remarks
No remarks
Member of
SeqAn - Sequence Analysis Library - www.seqan.de
 

Page built @2013/07/11 09:12:18