makeAttr() missing in KEGGgraph
1
0
Entering edit mode
@groot-philip-de-1307
Last seen 8.1 years ago
Hello, The KEGGgraph vignette depicts an example in which the command "makeAttr" is regularly used. However, this command is simply not available! Not in KEGGgraph and a search does not provide anything. So my question is: does somebody know how I am supposed to access the makeAttr function? > sessionInfo() R version 2.11.0 (2010-04-22) 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] grid stats graphics grDevices utils datasets methods [8] base other attached packages: [1] org.Hs.eg.db_2.4.1 RSQLite_0.8-4 DBI_0.2-5 [4] AnnotationDbi_1.10.0 Biobase_2.8.0 KEGGgraph_1.4.0 [7] Rgraphviz_1.26.0 graph_1.26.0 XML_2.8-1 loaded via a namespace (and not attached): [1] tools_2.11.0 Regards, Dr. Philip de Groot Ph.D. Bioinformatics Researcher Wageningen University / TIFN Nutrigenomics Consortium Nutrition, Metabolism & Genomics Group Division of Human Nutrition PO Box 8129, 6700 EV Wageningen Visiting Address: Erfelijkheidsleer: De Valk, Building 304 Dreijenweg 2, 6703 HA Wageningen Room: 0052a T: +31-317-485786 F: +31-317-483342 E-mail: Philip.deGroot at wur.nl<mailto:philip.degroot at="" wur.nl=""> Internet: http://www.nutrigenomicsconsortium.nl<http: www.nutrigenomi="" csconsortium.nl=""/> http://humannutrition.wur.nl/ https://madmax.bioinformatics.nl/
KEGGgraph KEGGgraph • 1.2k views
ADD COMMENT
0
Entering edit mode
@martin-morgan-1513
Last seen 18 days ago
United States
On 05/26/2010 05:06 AM, Groot, Philip de wrote: > Hello, > > The KEGGgraph vignette depicts an example in which the command > "makeAttr" is regularly used. However, this command is simply not > available! Not in KEGGgraph and a search does not provide anything. > So my question is: does somebody know how I am supposed to access the > makeAttr function? try browseVignettes('KEGGgraph') and view the R script associated with the vignette you're interested in. I think you'll see that it's defined elsewhere in the vignette (and that you can 'source()' the R script into your R session and verify that it is in fact executed when the PDF is vignette is processed). The information is also available from bioconductor.org -> Software -> KEGGgraph, leading to http://bioconductor.org/packages/2.6/bioc/html/KEGGgraph.html Martin >> sessionInfo() > R version 2.11.0 (2010-04-22) > 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] grid stats graphics grDevices utils datasets methods > [8] base > other attached packages: > [1] org.Hs.eg.db_2.4.1 RSQLite_0.8-4 DBI_0.2-5 > [4] AnnotationDbi_1.10.0 Biobase_2.8.0 KEGGgraph_1.4.0 > [7] Rgraphviz_1.26.0 graph_1.26.0 XML_2.8-1 > loaded via a namespace (and not attached): > [1] tools_2.11.0 > > Regards, > > Dr. Philip de Groot Ph.D. > Bioinformatics Researcher > > Wageningen University / TIFN > Nutrigenomics Consortium > Nutrition, Metabolism & Genomics Group > Division of Human Nutrition > PO Box 8129, 6700 EV Wageningen > Visiting Address: Erfelijkheidsleer: De Valk, Building 304 > Dreijenweg 2, 6703 HA Wageningen > Room: 0052a > T: +31-317-485786 > F: +31-317-483342 > E-mail: Philip.deGroot at wur.nl<mailto:philip.degroot at="" wur.nl=""> > Internet: http://www.nutrigenomicsconsortium.nl<http: www.nutrigeno="" micsconsortium.nl=""/> > http://humannutrition.wur.nl/ > https://madmax.bioinformatics.nl/ > > _______________________________________________ > 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 -- Martin Morgan Computational Biology / Fred Hutchinson Cancer Research Center 1100 Fairview Ave. N. PO Box 19024 Seattle, WA 98109 Location: Arnold Building M1 B861 Phone: (206) 667-2793
ADD COMMENT

Login before adding your answer.

Traffic: 288 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6