sliding_meansd: Compute mean and standard deviation of scores in a sliding...

In Ringo: R Investigation of ChIP-chip Oligoarrays

Description

This functions is used to slide a window of specified size over scores at given positions. Computed is the mean and standard deviation over the scores in the window.

Usage

sliding.meansd(positions, scores, half.width)

Arguments

positions	numeric; sorted vector of (genomic) positions of scores
scores	numeric; scores to be smoothed associated to the positions
half.width	numeric, half the window size of the sliding window

Value

Matrix with three columns:

mean	means over scores in running window centered at the positions that were specified in argument positions.
sd	standard deviations over scores in running window centered at the positions that were specified in argument positions.
count	number of points that were considered for computing the mean and standard deviation at each position

Author(s)

Joern Toedling and Oleg Sklyar

See Also

sliding.quantile

Examples

   set.seed(123)
   sampleSize <- 10
   ap <- cumsum(1+round(runif(sampleSize)*10))
   as <- c(rnorm(floor(sampleSize/3)),
           rnorm(ceiling(sampleSize/3),mean=1.5),
           rnorm(floor(sampleSize/3)))
   sliding.meansd(ap, as, 20)
   ap
   mean(as[1:3])
   sd(as[1:3])

Ringo documentation built on Nov. 8, 2020, 5:34 p.m.