read.maimages problem under sun ?
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@amin-moghaddasi-2163
Last seen 7.1 years ago
Hi list, I am using R.2.4.1 with limma 2.9.17 under sun2.7 to read "Targets.gpr" file. I've got the following error. Any help is appreciated. > targets FileName cy3 cy5 date comment 1 NH39_01_1.gpr A1 B2 01/01/2007 NA 2 NH39_01_2.gpr B2 A1 01/02/2007 NA 3 NH39_02_1.gpr A2 B3 01/03/2007 NA 4 NH39_02_2.gpr B3 A2 01/04/2007 NA 5 NH39_03_1.gpr A3 B4 01/05/2007 NA 6 NH39_03_2.gpr B4 A3 01/06/2007 NA > RG <- read.maimages(targets,source="genepix") Error in `[.data.frame`(obj, , columns[[a]]) : undefined columns selected > version _ platform sparc-sun-solaris2.7 arch sparc os solaris2.7 system sparc, solaris2.7 status major 2 minor 4.1 year 2006 month 12 day 18 svn rev 40228 language R version.string R version 2.4.1 (2006-12-18) > packageDescription("limma") Package: limma Version: 2.9.17 Date: 2007/04/04 Title: Linear Models for Microarray Data Author: Gordon Smyth with contributions from Matthew Ritchie, Jeremy Silver, James Wettenhall, Natalie Thorne, Mette Langaas, Egil Ferkingstad, Marcus Davy, Francois Pepin and Dongseok Choi. Maintainer: Gordon Smyth <smyth at="" wehi.edu.au=""> Depends: R (>= 2.3.0), methods Suggests: affy, marray, MASS, splines, sma, statmod (>= 1.2.2), vsn LazyLoad: yes Description: Data analysis, linear models and differential expression for microarray data. License: LGPL URL: http://bioinf.wehi.edu.au/limma biocViews: Microarray, OneChannel, TwoChannel, DataImport, QualityControl, Preprocessing, Statistics, DifferentialExpression, MultipleComparisons, TimeCourse Packaged: Wed Apr 4 15:49:28 2007; smyth Built: R 2.4.1; ; 2007-05-16 11:40:26; unix Best Regards Amin.
Microarray OneChannel TwoChannel DifferentialExpression Preprocessing QualityControl affy • 698 views
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Entering edit mode
@amin-moghaddasi-2163
Last seen 7.1 years ago
Hi list, I am using R.2.4.1 with limma 2.9.17 under sun2.7 to read "Targets.gpr" file. I've got the following error. Any help is appreciated. > targets FileName cy3 cy5 date comment 1 NH39_01_1.gpr A1 B2 01/01/2007 NA 2 NH39_01_2.gpr B2 A1 01/02/2007 NA 3 NH39_02_1.gpr A2 B3 01/03/2007 NA 4 NH39_02_2.gpr B3 A2 01/04/2007 NA 5 NH39_03_1.gpr A3 B4 01/05/2007 NA 6 NH39_03_2.gpr B4 A3 01/06/2007 NA > RG <- read.maimages(targets,source="genepix") Error in `[.data.frame`(obj, , columns[[a]]) : undefined columns selected > version _ platform sparc-sun-solaris2.7 arch sparc os solaris2.7 system sparc, solaris2.7 status major 2 minor 4.1 year 2006 month 12 day 18 svn rev 40228 language R version.string R version 2.4.1 (2006-12-18) > packageDescription("limma") Package: limma Version: 2.9.17 Date: 2007/04/04 Title: Linear Models for Microarray Data Author: Gordon Smyth with contributions from Matthew Ritchie, Jeremy Silver, James Wettenhall, Natalie Thorne, Mette Langaas, Egil Ferkingstad, Marcus Davy, Francois Pepin and Dongseok Choi. Maintainer: Gordon Smyth <smyth at="" wehi.edu.au=""> Depends: R (>= 2.3.0), methods Suggests: affy, marray, MASS, splines, sma, statmod (>= 1.2.2), vsn LazyLoad: yes Description: Data analysis, linear models and differential expression for microarray data. License: LGPL URL: http://bioinf.wehi.edu.au/limma biocViews: Microarray, OneChannel, TwoChannel, DataImport, QualityControl, Preprocessing, Statistics, DifferentialExpression, MultipleComparisons, TimeCourse Packaged: Wed Apr 4 15:49:28 2007; smyth Built: R 2.4.1; ; 2007-05-16 11:40:26; unix Best Regards Amin.
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