buildCdfEnv.biostrings: Build CDF environments

In altcdfenvs: alternative CDF environments (aka probeset mappings)

Description

Build CDF environment from Biostrings matchPDict results

Usage

buildCdfEnv.biostrings(apm, abatch = NULL,
                       nrow.chip = NULL, ncol.chip = NULL,
                       simplify = TRUE,
                       x.colname = "x", y.colname = "y",
                       verbose = FALSE)

Arguments

apm	AffyProbesMatch
abatch	AffyBatch
nrow.chip	number of rows for the chip type (see details)
ncol.chip	number of columns for the chip type (see details)
simplify	simplify the environment built (removing target names when there is no matching probe)
x.colname	column name
y.colname	column name
verbose	verbose TRUE/FALSE

Details

Whenever an abatch is specified, nrow.chip and ncol.chip are not needed. Specifying the an AffyBatch in abatch is the easiest way to specify information about the geometry of a chip type.

Value

An instance of class CdfEnvAffy.

altcdfenvs documentation built on Nov. 8, 2020, 7:12 p.m.