[BioC] table2html problem

Jean Yee Hwa Yang jean at biostat.ucsf.edu
Wed Jun 15 16:45:36 CEST 2005


You need to use the function "mapGeneInfo" to build a mapping between the
column names of your data.frame object and the website you wanted to map
it to.  For example, if you have the following R object "selgene" being a
data frame with the following info:

Name   GeneBank    SMDID
test   AA176741    611425

You can create your own map using:
mymap <- mapGeneInfo(Name="none", GeneBank="genbank", SMDID="SMDclid")

table2html(selgenes, mapURL=mymap)

will create a html with the GeneBank column having a hotlink to entrez and
the SMDID column having a hotlink to source. 



On Wed, 15 Jun 2005, Giulio Di Giovanni wrote:

> Hi,
> Does anyone know why I'm getting errors trying to build a simple html table 
> from my gene list?
> I have cloneIDs, and if I'm not wrong I always wrote
> table2html(selgenes, "genes.html", mapURL = SMDclid)
> to use Stanford Database clone IDs (as actually URLstring command shows..)
> but now I receive
> Error in table2html(geni, "genesUC.html", mapURL = SMDclid) :
>         Object "SMDclid" not found
> SMDclid wasn't a valid option ?
> How and where can I link CloneIDs ?
> (BTW  I'm just discovering that widget.mapGeneInfo it doesn't work 
> anymore... it gives Error in widget.mapGeneInfo(names) : couldn't find 
> function "widgetRender"
> thanks a lot
> Giulio
> >
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