[BioC] Problems with heatmap on genes...
michael watson (IAH-C)
michael.watson at bbsrc.ac.uk
Tue Nov 9 17:54:09 CET 2004
There's a function called heatmap.2 in the gregmisc library that will resize properly when you send it to a long png() or jpg().
It's similar to, but not the same as, heatmap() so read the docs!
From: Giulio Di Giovanni [mailto:perimessaggini at hotmail.com]
Sent: Tue 11/9/2004 3:37 PM
To: bioconductor at stat.math.ethz.ch
Subject: [BioC] Problems with heatmap on genes...
I'm trying to have a clear figure of gene clusters using heatmaps, but with
more than 100-200 genes it's not possible to do it, with default options
(and I would like to do that with 1500 genes or so...). Gene names (and
branchs too) collapse together...
I tried, setting new device dimensions (jpeg() or png() height and width),
and modifying par() options (fin, etc..), to have long cluster figures (to
be clear, dChip style). Well, it works for others high-level graphical
functions, but it doesn't work for heatmaps(). I always obtain big figures,
but with exactely the same squared heatmap inside.
I spent long time on the documentation and searching the web, and when I
found something, it was always some heatmaps for 50-100 genes at max
I trust that someone working on gene clustering is confidential on this,
and I will appreciate a lot any suggestion... I almost became crazy on that
Thanks in advance,
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