Description Usage Arguments Value Note Author(s) References See Also Examples
View source: R/methods-summarization.R
Fits robust Probe Level linear Models to all the (meta)probesets
in an FeatureSet
. This is carried out
on a (meta)probeset by (meta)probeset basis.
1 |
object |
|
background |
Do background correction? |
normalize |
Do normalization? |
target |
character vector describing the summarization target. Valid values are: 'probeset', 'core' (Gene/Exon), 'full' (Exon), 'extended' (Exon). |
method |
summarization method to be used. |
verbose |
verbosity flag. |
S4 |
return final value as an S4 object ( |
... |
subset to be passed down to |
fitProbeLevelModel
returns an oligoPLM
object, if S4=TRUE
; otherwise, it will return a list.
This is the initial port of fitPLM
to oligo. Some features
found on the original work by Ben Bolstad (in the affyPLM package) may
not be yet available. If you found one of this missing
characteristics, please contact Benilton Carvalho.
This is a simplified port from Ben Bolstad's work implemented in the affyPLM package. Problems with the implementation in oligo should be reported to Benilton Carvalho.
Bolstad, BM (2004) Low Level Analysis of High-density Oligonucleotide Array Data: Background, Normalization and Summarization. PhD Dissertation. University of California, Berkeley.
rma
, summarizationMethods
, subset
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