| word.rscan {sigma_difference} |
R Documentation |
Run the r-scan significance test on the spatial distribution of one
Description
oligonucleotide word (Dembo-Karlin 1992): detect the clustering, the<br /> overdispersion or the even spacing patterns against the random (Poisson)<br /> spacing expectation.
Usage
word.rscan(genome, word,
RMax = 5);
Arguments
genome
the genome nucleotide sequence. [as FastaSeq]
word
the oligonucleotide word under study. [as string]
RMax
the maximum r of the left-tail r-scan table; increase this value when the word copy number is large (e.g. the USS / HIP1 elements). [as integer]
Details
Authors
comparative_toolkit
Value
the r-scan result with the pattern interpretation
clr value class
Examples
[Package
sigma_difference version 1.0.0.0
Index]