Hi, I have a question about heatmap. I have a data with row as microRNA and
two columns are two cell expression values for these microRNA. So, like:
cell1 cell2
miRNA1 1.5 3.4
miRNA2 1.3 2.4
...................
miRNA50 5 2.1
miRNA51 7.3 0.5
I want to see some miRNA are high in cell1 and low in cell2 but others are
low in cell1 and high in cell2. I use heatmap.2(dataset, col=redgreen(50),
scale="row").
But I can only see two colors represent high and low values. Actually, i
want to see there are color variation in high values area too(rather than
just one color in high value area and one color in low value area). You know
what I mean? I know I have two columns so they just use two color to
represent the rank. But i want to see within high value area, there are
colors represent differences. But i don't think scale argument could be set
as "both"? Hope you can help me. Thank you.
--
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hadley wickham
2008-Oct-15 00:34 UTC
[R] A question about Heatmap for data with just 2 columns
Why not use a scatterplot? That will be far far better for your purpose than a heatmap. Hadley On Tue, Oct 14, 2008 at 4:45 PM, feishi <feishi2 at uic.edu> wrote:> > Hi, I have a question about heatmap. I have a data with row as microRNA and > two columns are two cell expression values for these microRNA. So, like: > > cell1 cell2 > miRNA1 1.5 3.4 > miRNA2 1.3 2.4 > ................... > miRNA50 5 2.1 > miRNA51 7.3 0.5 > > > I want to see some miRNA are high in cell1 and low in cell2 but others are > low in cell1 and high in cell2. I use heatmap.2(dataset, col=redgreen(50), > scale="row"). > But I can only see two colors represent high and low values. Actually, i > want to see there are color variation in high values area too(rather than > just one color in high value area and one color in low value area). You know > what I mean? I know I have two columns so they just use two color to > represent the rank. But i want to see within high value area, there are > colors represent differences. But i don't think scale argument could be set > as "both"? Hope you can help me. Thank you. > > > -- > View this message in context: http://www.nabble.com/A-question-about-Heatmap-for-data-with-just-2-columns-tp19982839p19982839.html > Sent from the R help mailing list archive at Nabble.com. > > ______________________________________________ > 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. >-- http://had.co.nz/