readPgf(file, indices = NULL)
character(1)
providing a path to the PGF file to be
input.integer(n)
a vector of indices of the probesets to
be read.header
element is always present; the
remainder are present when readBody=TRUE
.The elements present when readBody=TRUE
describe probe sets,
atoms, and probes. Elements within probe sets, for instance, are
coordinated such that the i
th index of one vector (e.g.,
probesetId
) corresponds to the i
th index of a second
vector (e.g., probesetType
). The atoms contained within
probeset i
are in positions
probesetStartAtom[i]:(probesetStartAtom[i+1]-1)
of the atom
vectors. A similar map applies to probes within atoms, using
atomStartProbe
as the index.The PGF file format includes optional elements; these elements are
always present in the list, but with appropriate default values.atomId
of atoms belonging to this probeset).probeId
of probes belonging to this atom). The internal function .pgfProbeIndexFromProbesetIndex
provides
a map between
the indicies of probe set entries and the indicies of the probes
contained in the probe set.