Question: annotation packages and goTools
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gravatar for Straubhaar, Juerg
14.7 years ago by
Straubhaar, Juerg300 wrote:
I would like to use goTools with a list of MOE430_2 probesets. It seems that a MOE430_2 annotation file is necessary for this to work. I tried this: >ontoCompare(namesList,probeType=c("moe430a","moe430b"), plot=TRUE) [1] "Starting ontoCompare..." Error: value for "1419903_at" not found A MOE430_2 package doesn't exist. As far as I know the MOE430_2 chip probes are the sum of the MOE430A and MOE430B chip probes. Can the MOE430A and -B annotation packages easily be merged to a MOE430_2 annotation package or is this more complicated? Juerg Straubhaar Umass Med
ADD COMMENTlink modified 14.7 years ago by John Zhang2.9k • written 14.7 years ago by Straubhaar, Juerg300
Answer: annotation packages and goTools
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gravatar for John Zhang
14.7 years ago by
John Zhang2.9k
John Zhang2.9k wrote:
>I would like to use goTools with a list of MOE430_2 probesets. It >seems that a MOE430_2 annotation file is necessary for this to work. The correct name for the package is mouse4302. Just do: >llibrary(reposTools) >install.packages2("mouse4302") > >I tried this: > >>ontoCompare(namesList,probeType=c("moe430a","moe430b"), plot=TRUE) >[1] "Starting ontoCompare..." >Error: value for "1419903_at" not found > >A MOE430_2 package doesn't exist. As far as I know the MOE430_2 >chip probes are the sum of the MOE430A and MOE430B chip probes. Can >the MOE430A and -B annotation packages easily be merged to a MOE430_2 >annotation package or is this more complicated? > >Juerg Straubhaar >Umass Med > >_______________________________________________ >Bioconductor mailing list >Bioconductor@stat.math.ethz.ch >https://stat.ethz.ch/mailman/listinfo/bioconductor Jianhua Zhang Department of Medical Oncology Dana-Farber Cancer Institute 44 Binney Street Boston, MA 02115-6084
ADD COMMENTlink written 14.7 years ago by John Zhang2.9k
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