<p>Hi everyone.
I am using Rcircos package to show genes mutated in a disease and the location of each on the chromosome.</p>

<p>I use the code exactly as example:</p>

<pre><code>#RCIRCOS
library(RCircos)
data(UCSC.HG19.Human.CytoBandIdeogram)
cyto.info &lt;- UCSC.HG19.Human.CytoBandIdeogram
num.inside &lt;- 5
num.outside &lt;- 0
chr.exclude &lt;- "chrY"
RCircos.Set.Core.Components(cyto.info,chr.exclude, num.inside, num.outside)
RCircos.Set.Plot.Area()
RCircos.Chromosome.Ideogram.Plot()
genomic.data &lt;- read.table(file.choose(),sep="\t",header=T)
RCircos.Gene.Connector.Plot(genomic.data, track.num=1, side="in")
RCircos.Gene.Name.Plot(genomic.data, name.col=4, track.num=2, side="in")
</code></pre>

<p>But there is a default maximum number of genes I can annotate to each chromosome. The function neglects all the extra values:</p>

<blockquote>
<pre><code>Maximum lables for  chr1 is 16 . Extra ones are ignored.
Maximum lables for  chr7 is 10 . Extra ones are ignored.
Maximum lables for  chr11 is 9 . Extra ones are ignored.
Maximum lables for  chr12 is 9 . Extra ones are ignored.
Maximum lables for  chr16 is 6 . Extra ones are ignored.
Maximum lables for  chr17 is 5 . Extra ones are ignored.
Maximum lables for  chr19 is 4 . Extra ones are ignored.
Maximum lables for  chr20 is 4 . Extra ones are ignored.
Maximum lables for  chr21 is 3 . Extra ones are ignored.
</code></pre>
</blockquote>

<p>Does anyone know how I can change these defaults?</p>

<p>Thank you.</p>

<p>Mehran</p>

<p>Looking at the <a href="https://bitbucket.org/henryhzhang/rcircos/src/90ad08b5277f94735fa1129d7c504df85ab6852a/R/RCircos.R?at=master#cl-2525">Rcircos&#39;s code</a>, it seems that the max number of labels depends from the default text size (see line 2526, and the definition of size.factor on line 2509). Have you tried to reduce the font size of labels?</p>

<p>In any case, I would suggest you to contact the author of Rcircos and report him the problem. By the way, you can tell him that there is a spelling typo in the error message.</p>
