[BioC] lumi: LumiBatch slots don't match documentation

Gordon Smyth smyth at wehi.EDU.AU
Fri Oct 26 10:25:21 CEST 2007


LumiBatch objects contain two slots (controlData and QC) which are 
not mentioned on the documentation page help("LumiBatch-class"). Yet 
they don't contain the slot "summary" which is described on the help page.

What are controlData and QC and how are they used?

Is summary defunct?

Gordon

 > library(lumi)
 > a <- new("LumiBatch")
 > slotNames(a)
[1] 
"history"           "controlData"       "QC"                "assayData"
[5] 
"phenoData"         "featureData"       "experimentData"    "annotation"
[9] ".__classVersion__"

 > sessionInfo()
R version 2.6.0 (2007-10-03)
i386-pc-mingw32

locale:
LC_COLLATE=English_Australia.1252;LC_CTYPE=English_Australia.1252;LC_MONETARY=English_Australia.1252;LC_NUMERIC=C;LC_TIME=English_Australia.1252

attached base packages:
[1] tools     stats     graphics  grDevices 
utils     datasets  methods   base

other attached packages:
  [1] 
lumi_1.4.0           annotate_1.16.0      xtable_1.5-1 
AnnotationDbi_1.0.0
  [5] 
RSQLite_0.6-3        DBI_0.2-3            mgcv_1.3-27 
affy_1.16.0
  [9] preprocessCore_1.0.0 affyio_1.6.0         Biobase_1.16.0



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