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...se other attached packages: [1] RWeka_0.3-20 tm_0.4 loaded via a namespace (and not attached): [1] grid_2.10.0 rJava_0.6-3 slam_0.1-3 ------------------------------------------------------------ Mark W. Kimpel MD ** Neuroinformatics ** Dept. of Psychiatry Indiana University School of Medicine 15032 Hunter Court, Westfield, IN 46074 (317) 490-5129 Work, & Mobile & VoiceMail "The real problem is not whether machines think but whether men do." -- B. F. Skinner ****************************************************************** [[alternative HTML version deleted]]

...phLayout/plugin.la: libgvc.so.3: cannot open shared object file: No such file or directory ** (R:25146): CRITICAL **: can't locate required plugin routine addToToolsMenu in GraphLayout > -- Mark W. Kimpel MD ** Neuroinformatics ** Dept. of Psychiatry Indiana University School of Medicine 15032 Hunter Court, Westfield, IN 46074 (317) 490-5129 Work, & Mobile & VoiceMail (317) 663-0513 Home (no voice mail please) ****************************************************************** [[alternative HTML version deleted]]

...tained in an environment. If you have an environment loaded, lets call it "pkgEnv', how does one find what it does contain? Mark ------------------------------------------------------------ Mark W. Kimpel MD ** Neuroinformatics ** Dept. of Psychiatry Indiana University School of Medicine 15032 Hunter Court, Westfield, IN 46074 (317) 490-5129 Work, & Mobile & VoiceMail (317) 399-1219 Home Skype: mkimpel "The real problem is not whether machines think but whether men do." -- B. F. Skinner ****************************************************************** [[alternat...

...newString<-paste(newString, substr(string, i, i), sep="") } } new.vec<-c(new.vec,newString) } new.vec } ------------------------------------------------------------ Mark W. Kimpel MD ** Neuroinformatics ** Dept. of Psychiatry Indiana University School of Medicine 15032 Hunter Court, Westfield, IN 46074 (317) 490-5129 Work, & Mobile & VoiceMail (317) 399-1219 Home Skype: mkimpel ****************************************************************** [[alternative HTML version deleted]]

...cy? This would seem like an intuitive feature, but I can't find it documented. In the absence of this feature, how can I make sure that I am setting the vertex name attributes correctly? -- Mark W. Kimpel MD ** Neuroinformatics ** Dept. of Psychiatry Indiana University School of Medicine 15032 Hunter Court, Westfield, IN 46074 (317) 490-5129 Work, & Mobile & VoiceMail (317) 204-4202 Home (no voice mail please) mwkimpel<at>gmail<dot>com

...1:Pxmp2" [[1]]$sig.cor [1] FALSE [[2]] [[2]]$gene.pair [1] "Lgals1:Pxmp2" [[2]]$sig.cor [1] TRUE [[3]] [[3]]$gene.pair [1] "Lgals1:Pxmp2" [[3]]$sig.cor [1] FALSE -- Mark W. Kimpel MD ** Neuroinformatics ** Dept. of Psychiatry Indiana University School of Medicine 15032 Hunter Court, Westfield, IN 46074 (317) 490-5129 Work, & Mobile & VoiceMail (317) 204-4202 Home (no voice mail please) mwkimpel<at>gmail<dot>com

...1.9 affy_1.15.7 [22] preprocessCore_0.99.12 affyio_1.5.6 Biobase_1.15.23 [25] graph_1.15.10 loaded via a namespace (and not attached): [1] cluster_1.11.7 rcompgen_0.1-15 --- Mark W. Kimpel MD ** Neuroinformatics ** Dept. of Psychiatry Indiana University School of Medicine 15032 Hunter Court, Westfield, IN 46074 (317) 490-5129 Work, & Mobile & VoiceMail (317) 663-0513 Home (no voice mail please)

...NT-ESH-27 Ambcha 10.00000 11 15016 ANT-ESH-28 Salvir 20.00000 14 15019 ANT-ESH-28 Atrpat 5.00000 18 15023 ANT-POR-Rubarm5 Rubarm 60.00000 19 15024 ANT-POR-Rubarm5 Hedhel 40.00000 25 15030 ECO-CBG-A2 Griint 5.00000 27 15032 ECO-CBG-A2 Anngra 5.00000 38 15043 ECO-CBG-A4 Sperub 50.00000 Regards, Graham Watt-Gremm

...ave workspace image? [y/n/c]: n ###################################### # kernel version mkimpel-XPS ~/R_HOME/R-devel/R-build/bin: uname -r 2.6.30-1-amd64 mkimpel-XPS ~/R_HOME/R-devel/R-build/bin: Mark W. Kimpel MD ** Neuroinformatics ** Dept. of Psychiatry Indiana University School of Medicine 15032 Hunter Court, Westfield, IN 46074 (317) 490-5129 Work, & Mobile & VoiceMail (317) 399-1219 Skype No Voicemail please [[alternative HTML version deleted]]

...of individual main titles as they are similar and their x and y axis labels are sufficient to distinguish them. Is there a way to assign an overall "main" to this page of plots? Mark -- Mark W. Kimpel MD ** Neuroinformatics ** Dept. of Psychiatry Indiana University School of Medicine 15032 Hunter Court, Westfield, IN 46074 (317) 490-5129 Work, & Mobile & VoiceMail (317) 663-0513 Home (no voice mail please) ****************************************************************** [[alternative HTML version deleted]]

...on www.r-project.org or CRAN to download source code for development versions of packages? This is straightforward for BioConductor packages but I can't seem to find it for R packages. Mark -- Mark W. Kimpel MD ** Neuroinformatics ** Dept. of Psychiatry Indiana University School of Medicine 15032 Hunter Court, Westfield, IN 46074 (317) 490-5129 Work, & Mobile & VoiceMail (317) 663-0513 Home (no voice mail please) ****************************************************************** [[alternative HTML version deleted]]

...he polygons can be transparent, so the option of just rendering the lines first won't work. Is there some help for me with an R internal or perhaps a higher level function? Thanks, Mark -- Mark W. Kimpel MD ** Neuroinformatics ** Dept. of Psychiatry Indiana University School of Medicine 15032 Hunter Court, Westfield, IN 46074 (317) 490-5129 Work, & Mobile & VoiceMail (317) 204-4202 Home (no voice mail please) mwkimpel<at>gmail<dot>com

...sk for ~20k models and NOT what I want. Without resorting to a slow loop/apply approach, is there a way to get lightening fast anova results in a fashion similar to that obtained from lm? Mark -- Mark W. Kimpel MD ** Neuroinformatics ** Dept. of Psychiatry Indiana University School of Medicine 15032 Hunter Court, Westfield, IN 46074 (317) 490-5129 Work, & Mobile & VoiceMail (317) 663-0513 Home (no voice mail please) ****************************************************************** [[alternative HTML version deleted]]

..."."), paste(i,j,sep=".")) } } res.lst ls(pattern = "res.lst..?") res.lst$contrast.5.5 <- 5.5 res.lst ------------------------------------------------------------ Mark W. Kimpel MD ** Neuroinformatics ** Dept. of Psychiatry Indiana University School of Medicine 15032 Hunter Court, Westfield, IN 46074 (317) 490-5129 Work, & Mobile & VoiceMail (317) 399-1219 Home Skype: mkimpel ****************************************************************** [[alternative HTML version deleted]]

...ect I get just one anova result. Is what I want to do possible? And, yes, I am quite conversant with Limma and other BioC packages, I have my reasons for wanting to use lm and anova. Thanks, Mark Mark W. Kimpel MD ** Neuroinformatics ** Dept. of Psychiatry Indiana University School of Medicine 15032 Hunter Court, Westfield, IN 46074 (317) 490-5129 Work, & Mobile & VoiceMail (317) 399-1219 Skype No Voicemail please [[alternative HTML version deleted]]

...Excel is alt-Enter and I've tried '/n', '/n/r', '/r/n' per some web suggestions without luck. Anybody know what character or ASCII code to use for this? Thanks, Mark Mark W. Kimpel MD ** Neuroinformatics ** Dept. of Psychiatry Indiana University School of Medicine 15032 Hunter Court, Westfield, IN 46074 (317) 490-5129 Work, & Mobile & VoiceMail (317) 399-1219 Skype No Voicemail please [[alternative HTML version deleted]]

...uot;/N/soft/linux-rhel4-x86_64/intel/cce/10.1.013/bin/icc" \ OBJCFLAGS="-O3 -no-prec-div -unroll" \ --disable-R-profiling --disable-memory-profiling ## make all make install Mark -- Mark W. Kimpel MD ** Neuroinformatics ** Dept. of Psychiatry Indiana University School of Medicine 15032 Hunter Court, Westfield, IN 46074 (317) 490-5129 Work, & Mobile & VoiceMail (317) 663-0513 Home (no voice mail please) ****************************************************************** [[alternative HTML version deleted]]

...MEASUREMENT=en_US.UTF-8;LC_IDENTIFICATION=C attached base packages: [1] stats graphics grDevices datasets utils methods base ------------------------------------------------------------ Mark W. Kimpel MD ** Neuroinformatics ** Dept. of Psychiatry Indiana University School of Medicine 15032 Hunter Court, Westfield, IN 46074 (317) 490-5129 Work, & Mobile & VoiceMail (317) 399-1219 Home Skype: mkimpel "The real problem is not whether machines think but whether men do." -- B. F. Skinner ****************************************************************** [[alternat...

...n two nodes then characterize that path. Rgraphviz seems to have a fair amount of rendering capabilities, but I don't see many functions to statistically analyze the graph. Thanks, Mark -- Mark W. Kimpel MD ** Neuroinformatics ** Dept. of Psychiatry Indiana University School of Medicine 15032 Hunter Court, Westfield, IN 46074 (317) 490-5129 Work, & Mobile & VoiceMail (317) 204-4202 Home (no voice mail please) mwkimpel<at>gmail<dot>com

...re the options in R? I've looked at RGL and perhaps it will suffice but it wasn't apparent from the documentation I found. Any demo scripts available for a package that will work? Mark -- Mark W. Kimpel MD ** Neuroinformatics ** Dept. of Psychiatry Indiana University School of Medicine 15032 Hunter Court, Westfield, IN 46074 (317) 490-5129 Work, & Mobile & VoiceMail (317) 663-0513 Home (no voice mail please) ****************************************************************** [[alternative HTML version deleted]]