Extract or Access
BPFrequency slot in a
Default value is c(0.25,0.25,0.25,0.25)
When generating a Postion Weight Matrix from a Position Frequency Matrix,
of occurrence of each base pair (Base Pair Frequency) is necessary
(as originally described by Gary Stormo). It is possible to
set custom values for
BPFrequency with a vector of length 4
containing the probability of occurrence of each base pair (A,C,G,T) in order.
If Base pair frequency is unknown,
BPFrequency will compute base pair
frequency from a DNA sequence. The nature of this sequence can be a
BSgenome or a
In order to decrease run time, it is advised to use
BPFrequency slot in
Patrick C.N. Martin <firstname.lastname@example.org>
Zabet NR, Adryan B (2015) Estimating binding properties of transcription factors from genome-wide binding profiles. Nucleic Acids Res., 43, 84<e2><80><93>94.
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