Hi STATISTICA has a function called "Two-way joining" (see http://www.statsoft.com/TEXTBOOK/stcluan.html#twotwo) and the reference material states that this is based on the method as published by Hartigan (found this paper: http://www.jstor.org/pss/2284710 through wikipedia). What is the relationship (if any) between the "heatmap" function in R and this technique? Is there an alternative function to use? Thanks for the help! Schalk Heunis
Hi all How can I un subscrive this forum? 2009/8/31 Schalk Heunis <schalk.heunis@enerweb.co.za>> Hi > > STATISTICA has a function called "Two-way joining" (see > http://www.statsoft.com/TEXTBOOK/stcluan.html#twotwo) and the > reference material states that this is based on the method as > published by Hartigan (found this paper: > http://www.jstor.org/pss/2284710 through wikipedia). > > What is the relationship (if any) between the "heatmap" function in R > and this technique? Is there an alternative function to use? > > Thanks for the help! > Schalk Heunis > > ______________________________________________ > R-help@r-project.org mailing list > https://stat.ethz.ch/mailman/listinfo/r-help > PLEASE do read the posting guide > http://www.R-project.org/posting-guide.html<http://www.r-project.org/posting-guide.html> > and provide commented, minimal, self-contained, reproducible code. >[[alternative HTML version deleted]]
Hi Schalk, the heatmap function does not implement "two-way joining" as far as I know. It clusters rows and columns independently. However if you find or program a method that implements two-way joining, you could use the row and column ordering it returns in your heatmap using the Rowv and Colv arguments to heatmap. -levi On Mon, Aug 31, 2009 at 2:25 AM, Schalk Heunis <schalk.heunis@enerweb.co.za>wrote:> Hi > > STATISTICA has a function called "Two-way joining" (see > http://www.statsoft.com/TEXTBOOK/stcluan.html#twotwo) and the > reference material states that this is based on the method as > published by Hartigan (found this paper: > http://www.jstor.org/pss/2284710 through wikipedia). > > What is the relationship (if any) between the "heatmap" function in R > and this technique? Is there an alternative function to use? > > Thanks for the help! > Schalk Heunis > > ______________________________________________ > R-help@r-project.org mailing list > https://stat.ethz.ch/mailman/listinfo/r-help > PLEASE do read the posting guide > http://www.R-project.org/posting-guide.html > and provide commented, minimal, self-contained, reproducible code. >-- Levi Waldron post-doctoral fellow Jurisica Lab, Ontario Cancer Institute Division of Signaling Biology TMDT 9-304D 101 College Street Toronto, Ontario M5G 1L7 (416)581-7453 [[alternative HTML version deleted]]
Levi Thanks for the reply, do you know of any function or package that does contain an implementation of two-way joining? I looked at the biclust package which implements several other (more modern?) bi-clustering techniques, but could not find two-way joining. Schalk Heunis On Mon, Aug 31, 2009 at 6:21 PM, Levi Waldron<lwaldron.research at gmail.com> wrote:> Hi Schalk, > the heatmap function does not implement "two-way joining" as far as I know. > It clusters rows and columns independently.? However if you find or program > a method that implements two-way joining, you could use the row and column > ordering it returns in your heatmap using the Rowv and Colv arguments to > heatmap. > -levi > > On Mon, Aug 31, 2009 at 2:25 AM, Schalk Heunis <schalk.heunis at enerweb.co.za> > wrote: >> >> Hi >> >> STATISTICA has a function called "Two-way joining" (see >> http://www.statsoft.com/TEXTBOOK/stcluan.html#twotwo) and the >> reference material states that this is based on the method as >> published by Hartigan (found this paper: >> http://www.jstor.org/pss/2284710 through wikipedia). >> >> What is the relationship (if any) between the "heatmap" function in R >> and this technique? Is there an alternative function to use? >> >> Thanks for the help! >> Schalk Heunis >> >> ______________________________________________ >> R-help at r-project.org mailing list >> https://stat.ethz.ch/mailman/listinfo/r-help >> PLEASE do read the posting guide >> http://www.R-project.org/posting-guide.html >> and provide commented, minimal, self-contained, reproducible code. > > > > -- > Levi Waldron > post-doctoral fellow > Jurisica Lab, Ontario Cancer Institute > Division of Signaling Biology > TMDT 9-304D > 101 College Street > Toronto, Ontario M5G 1L7 > (416)581-7453 >