Variations of plotting symbols

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Scott Ochsner ▴ 300

@scott-ochsner-599

Last seen 10.3 years ago

Dear BioC, I have five microarray datasets each with two levels. I'm plotting a PCA figure and would like to avoid using color as page charges for color in the journal I wish to submit are expensive. Is there a way to turn the solid triangle symbol (pch=17) 180 degrees? This would add enable me to use the upside down triangle (open and solid) as another symbol set. > sessionInfo() R version 2.7.0 (2008-04-22) i386-pc-mingw32 locale: LC_COLLATE=English_United States.1252;LC_CTYPE=English_United States.1252;LC_MONETARY=English_United States.1252;LC_NUMERIC=C;LC_TIME=English_United States.1252 attached base packages: [1] splines tools stats graphics grDevices utils datasets methods base other attached packages: [1] affycoretools_1.12.0 annaffy_1.12.1 KEGG.db_2.2.0 gcrma_2.12.1 matchprobes_1.12.0 biomaRt_1.14.0 [7] RCurl_0.9-3 GOstats_2.6.0 Category_2.6.0 RBGL_1.16.0 GO.db_2.2.0 graph_1.18.1 [13] limma_2.14.2 affy_1.18.1 preprocessCore_1.2.0 affyio_1.8.0 MLInterfaces_1.14.1 annotate_1.18.0 [19] xtable_1.5-2 AnnotationDbi_1.2.1 RSQLite_0.6-8 DBI_0.2-4 rda_1.0 rpart_3.1-41 [25] genefilter_1.20.0 survival_2.34-1 MASS_7.2-41 Biobase_2.0.1 loaded via a namespace (and not attached): [1] class_7.2-41 cluster_1.11.10 XML_1.95-2 Scott A. Ochsner, Ph.D. NURSA Bioinformatics Molecular and Cellular Biology Baylor College of Medicine Houston, TX. 77030 phone: 713-798-6227

Microarray GO Microarray GO • 878 views

ADD COMMENT • link updated 16.3 years ago by Kamila Naxerova ▴ 40 • written 16.3 years ago by Scott Ochsner ▴ 300

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Kamila Naxerova ▴ 40

@kamila-naxerova-2628

Last seen 10.3 years ago

e.g. pch=25, bg="black", col="black" Cheers, Kamila Ochsner, Scott A wrote: > Dear BioC, > > I have five microarray datasets each with two levels. I'm plotting a PCA figure and would like to avoid using color as page charges for color in the journal I wish to submit are expensive. > > Is there a way to turn the solid triangle symbol (pch=17) 180 degrees? This would add enable me to use the upside down triangle (open and solid) as another symbol set. > > >> sessionInfo() >> > R version 2.7.0 (2008-04-22) > i386-pc-mingw32 > > locale: > LC_COLLATE=English_United States.1252;LC_CTYPE=English_United States.1252;LC_MONETARY=English_United States.1252;LC_NUMERIC=C;LC_TIME=English_United States.1252 > > attached base packages: > [1] splines tools stats graphics grDevices utils datasets methods base > > other attached packages: > [1] affycoretools_1.12.0 annaffy_1.12.1 KEGG.db_2.2.0 gcrma_2.12.1 matchprobes_1.12.0 biomaRt_1.14.0 > [7] RCurl_0.9-3 GOstats_2.6.0 Category_2.6.0 RBGL_1.16.0 GO.db_2.2.0 graph_1.18.1 > [13] limma_2.14.2 affy_1.18.1 preprocessCore_1.2.0 affyio_1.8.0 MLInterfaces_1.14.1 annotate_1.18.0 > [19] xtable_1.5-2 AnnotationDbi_1.2.1 RSQLite_0.6-8 DBI_0.2-4 rda_1.0 rpart_3.1-41 > [25] genefilter_1.20.0 survival_2.34-1 MASS_7.2-41 Biobase_2.0.1 > > loaded via a namespace (and not attached): > [1] class_7.2-41 cluster_1.11.10 XML_1.95-2 > > Scott A. Ochsner, Ph.D. > NURSA Bioinformatics > Molecular and Cellular Biology > Baylor College of Medicine > Houston, TX. 77030 > phone: 713-798-6227 > > _______________________________________________ > 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 > >

ADD COMMENT • link 16.3 years ago Kamila Naxerova ▴ 40

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Kamila, Thanks, This is exactly what I needed. I failed to dig deep enough into the points documentation. Scott -----Original Message----- From: Kamila Naxerova [mailto:knaxerova@chip.org] Sent: Thursday, September 04, 2008 7:30 PM To: Ochsner, Scott A Cc: bioconductor at stat.math.ethz.ch Subject: Re: [BioC] Variations of plotting symbols e.g. pch=25, bg="black", col="black" Cheers, Kamila Ochsner, Scott A wrote: > Dear BioC, > > I have five microarray datasets each with two levels. I'm plotting a PCA figure and would like to avoid using color as page charges for color in the journal I wish to submit are expensive. > > Is there a way to turn the solid triangle symbol (pch=17) 180 degrees? This would add enable me to use the upside down triangle (open and solid) as another symbol set. > > >> sessionInfo() >> > R version 2.7.0 (2008-04-22) > i386-pc-mingw32 > > locale: > LC_COLLATE=English_United States.1252;LC_CTYPE=English_United > States.1252;LC_MONETARY=English_United > States.1252;LC_NUMERIC=C;LC_TIME=English_United States.1252 > > attached base packages: > [1] splines tools stats graphics grDevices utils datasets methods base > > other attached packages: > [1] affycoretools_1.12.0 annaffy_1.12.1 KEGG.db_2.2.0 gcrma_2.12.1 matchprobes_1.12.0 biomaRt_1.14.0 > [7] RCurl_0.9-3 GOstats_2.6.0 Category_2.6.0 RBGL_1.16.0 GO.db_2.2.0 graph_1.18.1 > [13] limma_2.14.2 affy_1.18.1 preprocessCore_1.2.0 affyio_1.8.0 MLInterfaces_1.14.1 annotate_1.18.0 > [19] xtable_1.5-2 AnnotationDbi_1.2.1 RSQLite_0.6-8 DBI_0.2-4 rda_1.0 rpart_3.1-41 > [25] genefilter_1.20.0 survival_2.34-1 MASS_7.2-41 Biobase_2.0.1 > > loaded via a namespace (and not attached): > [1] class_7.2-41 cluster_1.11.10 XML_1.95-2 > > Scott A. Ochsner, Ph.D. > NURSA Bioinformatics > Molecular and Cellular Biology > Baylor College of Medicine > Houston, TX. 77030 > phone: 713-798-6227 > > _______________________________________________ > 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 > >

ADD REPLY • link 16.3 years ago Scott Ochsner ▴ 300

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