Aha! I conveniently skipped the 'Gene Titan' part, huh? I'll take a look at them, thanks, b On Thu, Apr 8, 2010 at 11:04 AM, Hooiveld, Guido <guido.hooiveld at="" wur.nl=""> wrote: > Hi Benilton, > > Thanks for your suggestion. However, I did check before both release and dev annotation packages, but I could not found a pd package for this specific array. > > I assume you refer to pd.mogene.1.0.st.v1, > http://www.bioconductor.org/packages/devel/data/annotation/html/pd.m ogene.1.0.st.v1.html > which is for the cardridge mouse Gene ST array (=version 1.0) [MoGene-1_0-st-v1], > whereas I do have data generated on the peg (plate, GeneTitan) version of this array (= mouse Gene ST array version 1.1) [MoGene- 1_1-st-v1]. > > Guido > > > >> -----Original Message----- >> From: Benilton Carvalho [mailto:beniltoncarvalho at gmail.com] >> Sent: 07 April 2010 23:26 >> To: Hooiveld, Guido >> Cc: Vincent Carey; bioconductor at stat.math.ethz.ch >> Subject: Re: [BioC] pdInfoBuilder: invalid class object >> ("ScalarCharacter") >> >> i assume you're aware that this package is available for >> download via biocLite()... the updated version, with na30, >> will be released with the next bioc. b >> >> On Wed, Apr 7, 2010 at 10:17 PM, Hooiveld, Guido >> <guido.hooiveld at="" wur.nl=""> wrote: >> > Thanks Vince, that did the trick. >> > Working fine now. >> > Guido >> > >> > >> > ________________________________ >> > >> > ? ? ? ?From: Vincent Carey [mailto:stvjc at channing.harvard.edu] >> > ? ? ? ?Sent: 07 April 2010 21:48 >> > ? ? ? ?To: Hooiveld, Guido >> > ? ? ? ?Cc: bioconductor at stat.math.ethz.ch >> > ? ? ? ?Subject: Re: [BioC] pdInfoBuilder: invalid class object >> > ("ScalarCharacter") >> > >> > >> > ? ? ? ?This is not a message about a file format. ?It says that the >> > input to the class definition for slot transFile is of the >> wrong class. >> > Try >> > >> > ? ? ? ?transFile = new("ScalarCharacter", [your filename]) >> > >> > ? ? ? ?and see where you get. ?Note >> > >> > ? ? ? ?> getClass("AffyGenePDInfoPkgSeed") >> > ? ? ? ?Class "AffyGenePDInfoPkgSeed" [package "pdInfoBuilder"] >> > >> > ? ? ? ?Slots: >> > >> > >> > ? ? ? ?Name: ? ? ? ? ?pgfFile ? ? ? ? clfFile ? ? ? probeFile >> > transFile >> > ? ? ? ?Class: ScalarCharacter ScalarCharacter ScalarCharacter >> > ScalarCharacter >> > >> > >> > ? ? ? ?Name: ? ? ? ? ?coreMps ? ? ? ? fullMps ? ? extendedMps >> > geneArray >> > ? ? ? ?Class: ScalarCharacter ScalarCharacter >> ScalarCharacter logical >> > >> > >> > ? ? ? ?Name: ? ? ? ? ?version ? ? ? ? license ? ? ? ? ?author email >> > ? ? ? ?Class: ? ? ? character ? ? ? character ? ? ? character >> > character >> > >> > >> > ? ? ? ?Name: ? ? ? ?biocViews ? ? ? ?chipName ? ?manufacturer url >> > ? ? ? ?Class: ? ? ? character ? ? ? character ? ? ? character >> > character >> > >> > ? ? ? ?Name: ? ? ?genomebuild ? ? ? ?organism ? ? ? ? species >> > ? ? ? ?Class: ? ? ? character ? ? ? character ? ? ? character >> > >> > ? ? ? ?Extends: >> > ? ? ? ?Class "AffySTPDInfoPkgSeed", directly >> > ? ? ? ?Class "AffymetrixPDInfoPkgSeed", by class >> > "AffySTPDInfoPkgSeed", distance 2 >> > ? ? ? ?Class "PDInfoPkgSeed", by class >> "AffySTPDInfoPkgSeed", distance >> > 3 >> > >> > ? ? ? ?showing that some of the slots need to be instances of >> > ScalarCharacter, others can be plain character. ?Furthermore >> > >> > ? ? ? ?> getClass("ScalarCharacter") >> > ? ? ? ?Class "ScalarCharacter" [package "Biobase"] >> > >> > ? ? ? ?Slots: >> > >> > ? ? ? ?Name: ? ? ?.Data >> > ? ? ? ?Class: character >> > >> > ? ? ? ?Extends: >> > ? ? ? ?Class "ScalarObject", directly >> > ? ? ? ?Class "character", from data part >> > ? ? ? ?Class "vector", by class "character", distance 2 >> > ? ? ? ?Class "data.frameRowLabels", by class "character", distance 2 >> > ? ? ? ?Class "characterORMIAME", by class "character", distance 2 >> > >> > ? ? ? ?note furthermore >> > >> > ? ? ? ?> getValidity(getClass("ScalarObject")) >> > ? ? ? ?function (object) >> > ? ? ? ?{ >> > ? ? ? ? ? ?if (length(object) != 1L) >> > ? ? ? ? ? ? ? ?paste(class(object), "must have length one") >> > ? ? ? ? ? ?else TRUE >> > ? ? ? ?} >> > ? ? ? ?<environment: namespace:biobase=""> >> > >> > >> > >> > >> > >> > ? ? ? ?On Wed, Apr 7, 2010 at 2:55 PM, Hooiveld, Guido >> > <guido.hooiveld at="" wur.nl=""> wrote: >> > >> > >> > ? ? ? ? ? ? ? ?Dear list, >> > ? ? ? ? ? ? ? ?I am trying to build an annotation package for the >> > Mouse Gene 1.1 ST >> > ? ? ? ? ? ? ? ?Array Plate (GeneTitan peg array) using >> pdInfoBuilder. >> > As input i use >> > ? ? ? ? ? ? ? ?the PGF, CLF, etc files downloaded from Affymetrix. >> > However, the >> > ? ? ? ? ? ? ? ?following lines of code do not work; >> specifically I am >> > puzzled by the >> > ? ? ? ? ? ? ? ?error message that a file is in the wrong >> "format". Can >> > someone please >> > ? ? ? ? ? ? ? ?explain what this error means (i have never heard of >> > 'ScalarCharacter'), >> > ? ? ? ? ? ? ? ?and how to solve it? >> > ? ? ? ? ? ? ? ?Thanks, >> > ? ? ? ? ? ? ? ?Guido >> > >> > >> > >> http://www.affymetrix.com/browse/products.jsp?productId=131555&navMode >> > =3 >> > ? ? ? ? ? ? ? ?4000&navAction=jump&aId=productsNav#1_3 >> > >> <http: www.affymetrix.com="" browse="" products.jsp?productid="131555&amp;navMod">> > e= 3%0A4000&navAction=jump&aId=productsNav#1_3> >> > >> > >> > ? ? ? ? ? ? ? ?> library("pdInfoBuilder") >> > ? ? ? ? ? ? ? ?Loading required package: Biobase >> > >> > ? ? ? ? ? ? ? ?Welcome to Bioconductor >> > >> > ? ? ? ? ? ? ? ? Vignettes contain introductory material. To >> view, type >> > ? ? ? ? ? ? ? ? 'openVignette()'. To cite Bioconductor, see >> > ? ? ? ? ? ? ? ? 'citation("Biobase")' and for packages >> > 'citation(pkgname)'. >> > >> > ? ? ? ? ? ? ? ?Loading required package: RSQLite >> > ? ? ? ? ? ? ? ?Loading required package: DBI >> > ? ? ? ? ? ? ? ?Loading required package: affxparser >> > ? ? ? ? ? ? ? ?Loading required package: oligo >> > ? ? ? ? ? ? ? ?Loading required package: oligoClasses >> > ? ? ? ? ? ? ? ?Loading required package: preprocessCore >> > ? ? ? ? ? ? ? ?Welcome to oligo version 1.10.0 >> > ? ? ? ? ? ? ? ?> >> > ? ? ? ? ? ? ? ?> pgfFile = "MoGene-1_1-st-v1.r4.pgf"; >> > ? ? ? ? ? ? ? ?> clfFile = "MoGene-1_1-st-v1.r4.clf"; >> > ? ? ? ? ? ? ? ?> probeFile = "MoGene-1_1-st-v1.mm8.probe.tab"; >> > ? ? ? ? ? ? ? ?> transFile = >> > "MoGene-1_1-st-v1.na30.1.mm9.transcript.csv"; >> > ? ? ? ? ? ? ? ?> pkg <- new("AffyGenePDInfoPkgSeed", >> > ? ? ? ? ? ? ? ?+ ? ? ? ? ? version="0.0.1", >> > ? ? ? ? ? ? ? ?+ ? ? ? ? ? author="Guido Hooiveld", >> > email=guido.hooiveld at xxx, >> > ? ? ? ? ? ? ? ?+ ? ? ? ? ? biocViews="AnnotationData", >> > ? ? ? ? ? ? ? ?+ ? ? ? ? ? genomebuild="mm8", >> > ? ? ? ? ? ? ? ?+ ? ? ? ? ? pgfFile=pgfFile, clfFile=clfFile, >> > ? ? ? ? ? ? ? ?+ ? ? ? ? ? probeFile=probeFile, >> transFile=transFile); >> > ? ? ? ? ? ? ? ?Error in validObject(.Object) : >> > ? ? ? ? ? ? ? ? invalid class "AffyGenePDInfoPkgSeed" >> object: invalid >> > object for slot >> > ? ? ? ? ? ? ? ?"transFile" >> > ? ? ? ? ? ? ? ?in class "AffyGenePDInfoPkgSeed": got class >> > "character", >> > ? ? ? ? ? ? ? ?should be or extend class "ScalarCharacter" >> > ? ? ? ? ? ? ? ?> sessionInfo() >> > ? ? ? ? ? ? ? ?R version 2.10.1 (2009-12-14) >> > ? ? ? ? ? ? ? ?x86_64-unknown-linux-gnu >> > >> > ? ? ? ? ? ? ? ?locale: >> > ? ? ? ? ? ? ? ? [1] LC_CTYPE=en_US.UTF-8 ? ? ? LC_NUMERIC=C >> > ? ? ? ? ? ? ? ? [3] LC_TIME=en_US.UTF-8 >> LC_COLLATE=en_US.UTF-8 >> > ? ? ? ? ? ? ? ? [5] LC_MONETARY=C >> LC_MESSAGES=en_US.UTF-8 >> > ? ? ? ? ? ? ? ? [7] LC_PAPER=en_US.UTF-8 ? ? ? LC_NAME=C >> > ? ? ? ? ? ? ? ? [9] LC_ADDRESS=C ? ? ? ? ? ? ? LC_TELEPHONE=C >> > ? ? ? ? ? ? ? ?[11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C >> > ? ? ? ? ? ? ? ?attached base packages: >> > ? ? ? ? ? ? ? ?[1] stats ? ? graphics ?grDevices utils ? ? datasets >> > methods ? base >> > >> > >> > ? ? ? ? ? ? ? ?other attached packages: >> > ? ? ? ? ? ? ? ?[1] pdInfoBuilder_1.10.1 oligo_1.10.0 >> > preprocessCore_1.8.0 >> > ? ? ? ? ? ? ? ?[4] oligoClasses_1.8.0 ? affxparser_1.18.0 >> > RSQLite_0.8-0 >> > ? ? ? ? ? ? ? ?[7] DBI_0.2-5 ? ? ? ? ? ?Biobase_2.6.1 >> > >> > ? ? ? ? ? ? ? ?loaded via a namespace (and not attached): >> > ? ? ? ? ? ? ? ?[1] affyio_1.14.0 ? ? ?Biostrings_2.14.10 >> IRanges_1.4.9 >> > ? ? ? ? ? ? ? ?splines_2.10.1 >> > ? ? ? ? ? ? ? ?[5] tools_2.10.1 >> > >> > >> > >> > >> > ? ? ? ? ? ? ? ?------------------------------------------------ >> > ? ? ? ? ? ? ? ?Guido Hooiveld, PhD >> > ? ? ? ? ? ? ? ?Nutrition, Metabolism & Genomics Group >> > ? ? ? ? ? ? ? ?Division of Human Nutrition >> > ? ? ? ? ? ? ? ?Wageningen University >> > ? ? ? ? ? ? ? ?Biotechnion, Bomenweg 2 >> > ? ? ? ? ? ? ? ?NL-6703 HD Wageningen >> > ? ? ? ? ? ? ? ?the Netherlands >> > ? ? ? ? ? ? ? ?tel: (+)31 317 485788 >> > ? ? ? ? ? ? ? ?fax: (+)31 317 483342 >> > ? ? ? ? ? ? ? ?internet: ? http://nutrigene.4t.com >> > <http: nutrigene.4t.com=""/> >> > ? ? ? ? ? ? ? ?email: ? ? ?guido.hooiveld at wur.nl >> > >> > >> > >> > ? ? ? ? ? ? ? ? ? ? ? [[alternative HTML version deleted]] >> > >> > ? ? ? ? ? ? ? ?_______________________________________________ >> > ? ? ? ? ? ? ? ?Bioconductor mailing list >> > ? ? ? ? ? ? ? ?Bioconductor at stat.math.ethz.ch >> > ? ? ? ? ? ? ? ?https://stat.ethz.ch/mailman/listinfo/bioconductor >> > ? ? ? ? ? ? ? ?Search the archives: >> > http://news.gmane.org/gmane.science.biology.informatics.conductor >> > >> > >> > >> > >> > ? ? ? ?[[alternative HTML version deleted]] >> > >> > _______________________________________________ >> > Bioconductor mailing list >> > Bioconductor at stat.math.ethz.ch >> > https://stat.ethz.ch/mailman/listinfo/bioconductor >> > Search the archives: >> > http://news.gmane.org/gmane.science.biology.informatics.conductor >> > >> >> > >

ok... i have just created the packages... they should appear on the next bioc release. b On Thu, Apr 8, 2010 at 11:04 AM, Hooiveld, Guido <guido.hooiveld at="" wur.nl=""> wrote: > Hi Benilton, > > Thanks for your suggestion. However, I did check before both release and dev annotation packages, but I could not found a pd package for this specific array. > > I assume you refer to pd.mogene.1.0.st.v1, > http://www.bioconductor.org/packages/devel/data/annotation/html/pd.m ogene.1.0.st.v1.html > which is for the cardridge mouse Gene ST array (=version 1.0) [MoGene-1_0-st-v1], > whereas I do have data generated on the peg (plate, GeneTitan) version of this array (= mouse Gene ST array version 1.1) [MoGene- 1_1-st-v1]. > > Guido > > > >> -----Original Message----- >> From: Benilton Carvalho [mailto:beniltoncarvalho at gmail.com] >> Sent: 07 April 2010 23:26 >> To: Hooiveld, Guido >> Cc: Vincent Carey; bioconductor at stat.math.ethz.ch >> Subject: Re: [BioC] pdInfoBuilder: invalid class object >> ("ScalarCharacter") >> >> i assume you're aware that this package is available for >> download via biocLite()... the updated version, with na30, >> will be released with the next bioc. b >> >> On Wed, Apr 7, 2010 at 10:17 PM, Hooiveld, Guido >> <guido.hooiveld at="" wur.nl=""> wrote: >> > Thanks Vince, that did the trick. >> > Working fine now. >> > Guido >> > >> > >> > ________________________________ >> > >> > ? ? ? ?From: Vincent Carey [mailto:stvjc at channing.harvard.edu] >> > ? ? ? ?Sent: 07 April 2010 21:48 >> > ? ? ? ?To: Hooiveld, Guido >> > ? ? ? ?Cc: bioconductor at stat.math.ethz.ch >> > ? ? ? ?Subject: Re: [BioC] pdInfoBuilder: invalid class object >> > ("ScalarCharacter") >> > >> > >> > ? ? ? ?This is not a message about a file format. ?It says that the >> > input to the class definition for slot transFile is of the >> wrong class. >> > Try >> > >> > ? ? ? ?transFile = new("ScalarCharacter", [your filename]) >> > >> > ? ? ? ?and see where you get. ?Note >> > >> > ? ? ? ?> getClass("AffyGenePDInfoPkgSeed") >> > ? ? ? ?Class "AffyGenePDInfoPkgSeed" [package "pdInfoBuilder"] >> > >> > ? ? ? ?Slots: >> > >> > >> > ? ? ? ?Name: ? ? ? ? ?pgfFile ? ? ? ? clfFile ? ? ? probeFile >> > transFile >> > ? ? ? ?Class: ScalarCharacter ScalarCharacter ScalarCharacter >> > ScalarCharacter >> > >> > >> > ? ? ? ?Name: ? ? ? ? ?coreMps ? ? ? ? fullMps ? ? extendedMps >> > geneArray >> > ? ? ? ?Class: ScalarCharacter ScalarCharacter >> ScalarCharacter logical >> > >> > >> > ? ? ? ?Name: ? ? ? ? ?version ? ? ? ? license ? ? ? ? ?author email >> > ? ? ? ?Class: ? ? ? character ? ? ? character ? ? ? character >> > character >> > >> > >> > ? ? ? ?Name: ? ? ? ?biocViews ? ? ? ?chipName ? ?manufacturer url >> > ? ? ? ?Class: ? ? ? character ? ? ? character ? ? ? character >> > character >> > >> > ? ? ? ?Name: ? ? ?genomebuild ? ? ? ?organism ? ? ? ? species >> > ? ? ? ?Class: ? ? ? character ? ? ? character ? ? ? character >> > >> > ? ? ? ?Extends: >> > ? ? ? ?Class "AffySTPDInfoPkgSeed", directly >> > ? ? ? ?Class "AffymetrixPDInfoPkgSeed", by class >> > "AffySTPDInfoPkgSeed", distance 2 >> > ? ? ? ?Class "PDInfoPkgSeed", by class >> "AffySTPDInfoPkgSeed", distance >> > 3 >> > >> > ? ? ? ?showing that some of the slots need to be instances of >> > ScalarCharacter, others can be plain character. ?Furthermore >> > >> > ? ? ? ?> getClass("ScalarCharacter") >> > ? ? ? ?Class "ScalarCharacter" [package "Biobase"] >> > >> > ? ? ? ?Slots: >> > >> > ? ? ? ?Name: ? ? ?.Data >> > ? ? ? ?Class: character >> > >> > ? ? ? ?Extends: >> > ? ? ? ?Class "ScalarObject", directly >> > ? ? ? ?Class "character", from data part >> > ? ? ? ?Class "vector", by class "character", distance 2 >> > ? ? ? ?Class "data.frameRowLabels", by class "character", distance 2 >> > ? ? ? ?Class "characterORMIAME", by class "character", distance 2 >> > >> > ? ? ? ?note furthermore >> > >> > ? ? ? ?> getValidity(getClass("ScalarObject")) >> > ? ? ? ?function (object) >> > ? ? ? ?{ >> > ? ? ? ? ? ?if (length(object) != 1L) >> > ? ? ? ? ? ? ? ?paste(class(object), "must have length one") >> > ? ? ? ? ? ?else TRUE >> > ? ? ? ?} >> > ? ? ? ?<environment: namespace:biobase=""> >> > >> > >> > >> > >> > >> > ? ? ? ?On Wed, Apr 7, 2010 at 2:55 PM, Hooiveld, Guido >> > <guido.hooiveld at="" wur.nl=""> wrote: >> > >> > >> > ? ? ? ? ? ? ? ?Dear list, >> > ? ? ? ? ? ? ? ?I am trying to build an annotation package for the >> > Mouse Gene 1.1 ST >> > ? ? ? ? ? ? ? ?Array Plate (GeneTitan peg array) using >> pdInfoBuilder. >> > As input i use >> > ? ? ? ? ? ? ? ?the PGF, CLF, etc files downloaded from Affymetrix. >> > However, the >> > ? ? ? ? ? ? ? ?following lines of code do not work; >> specifically I am >> > puzzled by the >> > ? ? ? ? ? ? ? ?error message that a file is in the wrong >> "format". Can >> > someone please >> > ? ? ? ? ? ? ? ?explain what this error means (i have never heard of >> > 'ScalarCharacter'), >> > ? ? ? ? ? ? ? ?and how to solve it? >> > ? ? ? ? ? ? ? ?Thanks, >> > ? ? ? ? ? ? ? ?Guido >> > >> > >> > >> http://www.affymetrix.com/browse/products.jsp?productId=131555&navMode >> > =3 >> > ? ? ? ? ? ? ? ?4000&navAction=jump&aId=productsNav#1_3 >> > >> <http: www.affymetrix.com="" browse="" products.jsp?productid="131555&amp;navMod">> > e= 3%0A4000&navAction=jump&aId=productsNav#1_3> >> > >> > >> > ? ? ? ? ? ? ? ?> library("pdInfoBuilder") >> > ? ? ? ? ? ? ? ?Loading required package: Biobase >> > >> > ? ? ? ? ? ? ? ?Welcome to Bioconductor >> > >> > ? ? ? ? ? ? ? ? Vignettes contain introductory material. To >> view, type >> > ? ? ? ? ? ? ? ? 'openVignette()'. To cite Bioconductor, see >> > ? ? ? ? ? ? ? ? 'citation("Biobase")' and for packages >> > 'citation(pkgname)'. >> > >> > ? ? ? ? ? ? ? ?Loading required package: RSQLite >> > ? ? ? ? ? ? ? ?Loading required package: DBI >> > ? ? ? ? ? ? ? ?Loading required package: affxparser >> > ? ? ? ? ? ? ? ?Loading required package: oligo >> > ? ? ? ? ? ? ? ?Loading required package: oligoClasses >> > ? ? ? ? ? ? ? ?Loading required package: preprocessCore >> > ? ? ? ? ? ? ? ?Welcome to oligo version 1.10.0 >> > ? ? ? ? ? ? ? ?> >> > ? ? ? ? ? ? ? ?> pgfFile = "MoGene-1_1-st-v1.r4.pgf"; >> > ? ? ? ? ? ? ? ?> clfFile = "MoGene-1_1-st-v1.r4.clf"; >> > ? ? ? ? ? ? ? ?> probeFile = "MoGene-1_1-st-v1.mm8.probe.tab"; >> > ? ? ? ? ? ? ? ?> transFile = >> > "MoGene-1_1-st-v1.na30.1.mm9.transcript.csv"; >> > ? ? ? ? ? ? ? ?> pkg <- new("AffyGenePDInfoPkgSeed", >> > ? ? ? ? ? ? ? ?+ ? ? ? ? ? version="0.0.1", >> > ? ? ? ? ? ? ? ?+ ? ? ? ? ? author="Guido Hooiveld", >> > email=guido.hooiveld at xxx, >> > ? ? ? ? ? ? ? ?+ ? ? ? ? ? biocViews="AnnotationData", >> > ? ? ? ? ? ? ? ?+ ? ? ? ? ? genomebuild="mm8", >> > ? ? ? ? ? ? ? ?+ ? ? ? ? ? pgfFile=pgfFile, clfFile=clfFile, >> > ? ? ? ? ? ? ? ?+ ? ? ? ? ? probeFile=probeFile, >> transFile=transFile); >> > ? ? ? ? ? ? ? ?Error in validObject(.Object) : >> > ? ? ? ? ? ? ? ? invalid class "AffyGenePDInfoPkgSeed" >> object: invalid >> > object for slot >> > ? ? ? ? ? ? ? ?"transFile" >> > ? ? ? ? ? ? ? ?in class "AffyGenePDInfoPkgSeed": got class >> > "character", >> > ? ? ? ? ? ? ? ?should be or extend class "ScalarCharacter" >> > ? ? ? ? ? ? ? ?> sessionInfo() >> > ? ? ? ? ? ? ? ?R version 2.10.1 (2009-12-14) >> > ? ? ? ? ? ? ? ?x86_64-unknown-linux-gnu >> > >> > ? ? ? ? ? ? ? ?locale: >> > ? ? ? ? ? ? ? ? [1] LC_CTYPE=en_US.UTF-8 ? ? ? LC_NUMERIC=C >> > ? ? ? ? ? ? ? ? [3] LC_TIME=en_US.UTF-8 >> LC_COLLATE=en_US.UTF-8 >> > ? ? ? ? ? ? ? ? [5] LC_MONETARY=C >> LC_MESSAGES=en_US.UTF-8 >> > ? ? ? ? ? ? ? ? [7] LC_PAPER=en_US.UTF-8 ? ? ? LC_NAME=C >> > ? ? ? ? ? ? ? ? [9] LC_ADDRESS=C ? ? ? ? ? ? ? LC_TELEPHONE=C >> > ? ? ? ? ? ? ? ?[11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C >> > ? ? ? ? ? ? ? ?attached base packages: >> > ? ? ? ? ? ? ? ?[1] stats ? ? graphics ?grDevices utils ? ? datasets >> > methods ? base >> > >> > >> > ? ? ? ? ? ? ? ?other attached packages: >> > ? ? ? ? ? ? ? ?[1] pdInfoBuilder_1.10.1 oligo_1.10.0 >> > preprocessCore_1.8.0 >> > ? ? ? ? ? ? ? ?[4] oligoClasses_1.8.0 ? affxparser_1.18.0 >> > RSQLite_0.8-0 >> > ? ? ? ? ? ? ? ?[7] DBI_0.2-5 ? ? ? ? ? ?Biobase_2.6.1 >> > >> > ? ? ? ? ? ? ? ?loaded via a namespace (and not attached): >> > ? ? ? ? ? ? ? ?[1] affyio_1.14.0 ? ? ?Biostrings_2.14.10 >> IRanges_1.4.9 >> > ? ? ? ? ? ? ? ?splines_2.10.1 >> > ? ? ? ? ? ? ? ?[5] tools_2.10.1 >> > >> > >> > >> > >> > ? ? ? ? ? ? ? ?------------------------------------------------ >> > ? ? ? ? ? ? ? ?Guido Hooiveld, PhD >> > ? ? ? ? ? ? ? ?Nutrition, Metabolism & Genomics Group >> > ? ? ? ? ? ? ? ?Division of Human Nutrition >> > ? ? ? ? ? ? ? ?Wageningen University >> > ? ? ? ? ? ? ? ?Biotechnion, Bomenweg 2 >> > ? ? ? ? ? ? ? ?NL-6703 HD Wageningen >> > ? ? ? ? ? ? ? ?the Netherlands >> > ? ? ? ? ? ? ? ?tel: (+)31 317 485788 >> > ? ? ? ? ? ? ? ?fax: (+)31 317 483342 >> > ? ? ? ? ? ? ? ?internet: ? http://nutrigene.4t.com >> > <http: nutrigene.4t.com=""/> >> > ? ? ? ? ? ? ? ?email: ? ? ?guido.hooiveld at wur.nl >> > >> > >> > >> > ? ? ? ? ? ? ? ? ? ? ? [[alternative HTML version deleted]] >> > >> > ? ? ? ? ? ? ? ?_______________________________________________ >> > ? ? ? ? ? ? ? ?Bioconductor mailing list >> > ? ? ? ? ? ? ? ?Bioconductor at stat.math.ethz.ch >> > ? ? ? ? ? ? ? ?https://stat.ethz.ch/mailman/listinfo/bioconductor >> > ? ? ? ? ? ? ? ?Search the archives: >> > http://news.gmane.org/gmane.science.biology.informatics.conductor >> > >> > >> > >> > >> > ? ? ? ?[[alternative HTML version deleted]] >> > >> > _______________________________________________ >> > Bioconductor mailing list >> > Bioconductor at stat.math.ethz.ch >> > https://stat.ethz.ch/mailman/listinfo/bioconductor >> > Search the archives: >> > http://news.gmane.org/gmane.science.biology.informatics.conductor >> > >> >> > >