Hi Sir, Sure, I will do so. Thank you, Saurin --- "James W. MacDonald" <jmacdon@med.umich.edu> wrote: > Saurin Jani wrote: > > Hi, > > > > I think I have installation problem, somehow I did > not > > install properly or something but I am getting > when I > > do ?GO2PROBE > > > > This is not surprising since there is nothing called > GO2PROBE! I presume > you are interested in a particular environment in a > particular > annotation package? For instance, you can see the > help page for the > hgu133aGO2PROBE this way: > > library(hgu133a) > ?hgu133aGO2PROBE > ?hgu133aGO2ALLPROBES > > As Robert mentioned in his original response, there > is a huge amount of > information supplied with each of the BioC packages, > as well as with R > itself. All this information, as well as the > functions themselves (not > to mention the help that is offered on this > listserv), have been offered > to you for free. > > One expectation of an open source project such as > BioC is that people > who choose to use the software will make use of all > this free > information *first* and ask questions on the > listserv only as a last > resort (as mentioned above, the help given is > *free*, and usually > uncompensated). Please do yourself (and us) a favor > and familiarize > yourself with some of this information so you don't > have to be so > reliant on this listserv for answers. > > Best, > > Jim > > > > > >>?GO2PROBE > > > > No documentation for 'GO2PROBE' in specified > packages > > and libraries: > > you could try 'help.search("GO2PROBE")' > > > > and below messages including warnings for : > > > > > >>help.search("GO2PROBE"); > > > > Help files with alias or concept or title matching > > 'GO2PROBE' using > > fuzzy matching: > > > > cleanSrcObjs(AnnBuilder) > > Supporting function that > may > > no of any other > > usese > > hgu133aGO2PROBE(hgu133a) > > Mappings between GO > > identifiers and probe > > identifiers representing > genes > > that are > > directly associated with > the > > GO ids > > hgu95av2GO2PROBE(hgu95av2) > > Mappings between GO > > identifiers and probe > > identifiers representing > genes > > that are > > directly associated with > the > > GO ids > > hu6800GO2PROBE(hu6800) > > Mappings between GO > > identifiers and probe > > identifiers representing > genes > > that are > > directly associated with > the > > GO ids > > moe430aGO2PROBE(moe430a) > > Mappings between GO > > identifiers and probe > > identifiers representing > genes > > that are > > directly associated with > the > > GO ids > > rae230aGO2PROBE(rae230a) > > Annotation of GO > identifiers > > by probe ids > > corresponding to the GO > ids > > YEASTGO2PROBE(YEAST) Mappings between GO > > identifiers and probe > > identifiers representing > genes > > that are > > directly associated with > the > > GO ids > > > > > > Type 'help(FOO, package = PKG)' to inspect entry > > 'FOO(PKG) TITLE'. > > > > Warning messages: > > 1: No Rd contents for package 'GeneTraffic' in > > '/usr/local/lib/R/library' in: > help.search("GO2PROBE") > > 2: No Rd contents for package 'KEGGSOAP' in > > '/usr/local/lib/R/library' in: > help.search("GO2PROBE") > > 3: No Rd contents for package 'R2HTML' in > > '/usr/local/lib/R/library' in: > help.search("GO2PROBE") > > 4: No Rd contents for package 'RCurl' in > > '/usr/local/lib/R/library' in: > help.search("GO2PROBE") > > 5: No Rd contents for package 'SSOAP' in > > '/usr/local/lib/R/library' in: > help.search("GO2PROBE") > > > > > > > > > > I have R-2.0 with develOK=TRUE version. Is > something > > wrong in my installation/configure process? > > > > Thanks, > > Saurin > > > > > > > > > > > > > > > > --- Robert Gentleman <rgentlem@jimmy.harvard.edu> > > wrote: > > > > > >>On Thu, Oct 14, 2004 at 09:20:49AM -0700, Saurin > >>Jani wrote: > >> > >>>Hi, > >>> > >>>What is difference between GO2ALLPROBES and > >> > >>GO2PROBE? > >> > >> Hi, > >> All of these are well documented in the > >>appropriate manual > >> pages, did you not get them or are you unable > to > >>find them for > >> some reason? ?GO2PROBE is one way, as is > using > >>help.start or any > >> of a number of other methods. You might find > it > >>helpful to spend > >> some time reading some of the R manuals as > well. > >> > >> Robert > >> > >> > >>> > >>unique(lookUp(DECCnodes[[1]],"moe430a","GO2PROBE")) > >> > >>>I get : 76 probes > >>> > >>> > >> > > > unique(lookUp(DECCnodes[[1]],"moe430a","GO2ALLPROBES")) > > > >>>I get : 281 probes > >>> > >>> > >>>Thanks, > >>>Saurin > >>> > >>>_______________________________________________ > >>>Bioconductor mailing list > >>>Bioconductor@stat.math.ethz.ch > >>>https://stat.ethz.ch/mailman/listinfo/bioconductor > >> > >>-- > >> > > > > > +--------------------------------------------------------------------- ------+ > > > >>| Robert Gentleman phone : (617) > >>632-5250 | > >>| Associate Professor fax: (617) > >>632-2444 | > >>| Department of Biostatistics office: M1B20 > > >> | > >>| Harvard School of Public Health email: > >>rgentlem@jimmy.harvard.edu | > >> > > > > > +--------------------------------------------------------------------- ------+ > > > > > > _______________________________________________ > > Bioconductor mailing list > > Bioconductor@stat.math.ethz.ch > > https://stat.ethz.ch/mailman/listinfo/bioconductor > > > -- > James W. MacDonald > Affymetrix and cDNA Microarray Core > University of Michigan Cancer Center > 1500 E. Medical Center Drive > 7410 CCGC > Ann Arbor MI 48109 >