splicegear (version 1.44.0)

SpliceSites-class: Class "SpliceSites"

Description

A class to store (putative) splice sites

Objects from the Class

Objects can be created by calls of the form new("SpliceSites", ...).

References

"Plenty of splicin' or 'can regular Affymetrix chips be used to observe alternative splicing ?'", Gautier L. et al., 2003, manuscript in preparation (and the title might have to chang...).

See Also

isSpliceSiteOnProbe, isProbeOnSpliceSite, plot.SpliceSites, spliceset.

Examples

data(spliceset)

print(spliceset)

par(mfrow=c(1,2))

plot(spliceset, main=attr(spliceset, "name"))

## filter out supporting matches with unique positions
filter.typeI <- function(x) {unique(x[duplicated(x), , drop=FALSE])}
spliceset.filter <- spliceset
sSites <- spliceset.filter@spliceSites
sSites@spsiteIpos <- filter.typeI(sSites@spsiteIpos)
spliceset.filter@spliceSites <- sSites
## plot the resulting new object
plot(spliceset.filter)