calcPC
is the generic method.
calcPC(object, method, ...)
xsAnnotate-class
objectIf the xsAnnotate is pregrouped, for example groupFWHM, only the already existing groups will be further processed.
The different algorithms that can be used by specifying them with the
method
argument. For example to use the highly connected
subgraphs approach by E. Hartuv, R. Shamir, (1999), one would use:
calcPC(object, method="hcs")
. This is also
the default, see calcPC.hcs
.
Further arguments given by ...
are
passed through to the function implementing
the method
, which are most likely ajc.
The parameter ajc is the peak distance matrix.
getOption("BioC")$CAMERA$findPeaks.methods
returns
a character vector of nicknames for the
algorithms available.
The function returns a xsAnnotate object with grouping information,
as list of peak indices. They are stored as object@pspectra.
calcPC.lpc
calcPC.hcs
xsAnnotate-class