[BioC] contributing to Bioconductor

Wilkinson, Mark Mark.Wilkinson at stjude.org
Thu Mar 13 12:29:14 MET 2003


Oh well.  Should anyone be interested in my attempt, I'm attaching the code
(in a package, for convenience) anyway.


Mark Wilkinson
Informatics Analyst
St. Jude Children's Research Hospital
Department of Pharmaceutical Sciences

The opinions expressed here are my own and do not necessarily represent
those of St. Jude Children's Research Hospital.

 -----Original Message-----
From: 	Martin Maechler [mailto:maechler at stat.math.ethz.ch] 
Sent:	Thursday, March 13, 2003 11:19 AM
To:	Wilkinson, Mark
Cc:	Bioconductor (E-mail)
Subject:	Re: [BioC] contributing to Bioconductor

>>>>> "MarkW" == Wilkinson, Mark <Mark.Wilkinson at stjude.org>
>>>>>     on Thu, 13 Mar 2003 10:10:36 -0600 writes:

    MarkW> A few weeks ago there was some talk about a 'heatmap'
    MarkW> function that would plot a heat map with two
    MarkW> dendrograms to show clustering (after hclust).  I
    MarkW> mentioned then that I had been cooking something up.
    MarkW> I feel like it's ready to give to the community to
    MarkW> use, test, break, etc.  Which leads me to my
    MarkW> question: How does one go about contributing a
    MarkW> function like this, whose singular purpose doesn't
    MarkW> warrant a package of its own?  Some packages of
    MarkW> Bioconductor seem like they might accommodate it now
    MarkW> or in the future, such as geneplotter, genecluster
    MarkW> (dev).  Should I email the maintainers of those
    MarkW> packages and try to convince them to wedge in my
    MarkW> little function?  Any advice?

heatmap() will be a function in the next version of R,
thanks to Andy Liaw [post to here] and Robert Gentleman. (and myself).
Robert Gentleman (mostly) and I (somewhat) have added
functionality to the "dendrogram" class in R's mva package.
heatmap() builds on that.

In general, e-mailing package maintainers is a good idea,
or even posting to the "R-devel" mailing list -- which is there for
the purpose of discussing future enhancements for R.

Depending on the topic, you might get more interested parties
than with the bioconductor list.

Martin Maechler <maechler at stat.math.ethz.ch>
Seminar fuer Statistik, ETH-Zentrum  LEO C16	Leonhardstr. 27
ETH (Federal Inst. Technology)	8092 Zurich	SWITZERLAND
phone: x-41-1-632-3408		fax: ...-1228			<><
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