[R] Two way joining vs heatmap
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.
Re: [R] Two way joining vs heatmap
Hi all How can I un subscrive this forum? 2009/8/31 Schalk Heunis schalk.heu...@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.htmlhttp://www.r-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code. [[alternative HTML version deleted]] __ 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.
Re: [R] Two way joining vs heatmap
Oscar Bayona wrote: Hi all How can I un subscrive this forum? By following the instructions on https://stat.ethz.ch/mailman/listinfo/r-help -- O__ Peter Dalgaard Øster Farimagsgade 5, Entr.B c/ /'_ --- Dept. of Biostatistics PO Box 2099, 1014 Cph. K (*) \(*) -- University of Copenhagen Denmark Ph: (+45) 35327918 ~~ - (p.dalga...@biostat.ku.dk) FAX: (+45) 35327907 __ 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.
Re: [R] Two way joining vs heatmap
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.heu...@enerweb.co.zawrote: 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]] __ 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.
Re: [R] Two way joining vs heatmap
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 Waldronlwaldron.resea...@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.heu...@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 __ 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.
