[BioC] problem with hclust
Antoine Lucas
antoinelucas at libertysurf.fr
Tue Nov 8 14:12:55 CET 2005
Dear,
For a convenient tree browssing, you can use an external software:
freeview or treeview (http://magix.fri.uni-lj.si/freeview).
Package ctc is usefull to export R hclust object to freeview/treeview file
format.
Regards,
Antoine Lucas.
Le Tue, 08 Nov 2005 18:25:15 +0530
madhurima bhattacharjee <madhurima_b at persistent.co.in> a écrit:
> Hello everybody,
>
> I am using the hclust() function in R.
> I have a 2000*12 matrix of expression data.
> I have created a distance matrix with dist() using Euclidean method.
> Then in hclust I have used complete linkage method.
> Now when I am trying to plot the dendogram with pclust method I cannot
> see the details of the tree.
> The gene names and the lower parts of the dendogram are not visible
> Is there any method by which I can see only selected parts of the
> dendogram.....or Zoom in or out....
> I have used the follwing command for pclust:
> plclust(H2000, unit = FALSE, level = FALSE, hmin = 0,
> + square = TRUE, labels =names2000 , plot. = TRUE,
> + axes = TRUE, frame.plot = FALSE, ann = TRUE,
> + main = "", sub = NULL, xlab = NULL, ylab = "Height")
>
> I am attaching a snapshot of the dendogram that I am getting.
> Please help ASAP.
>
> Thanks in advance,
> Madhurima.
>
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--
Antoine Lucas
Centre de génétique Moléculaire, CNRS
91198 Gif sur Yvette Cedex
Tel: (33)1 69 82 38 89
Fax: (33)1 69 82 38 77
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