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Paquet, Agnes
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@paquet-agnes-807
Last seen 10.2 years ago
Hi Rob,
Unfortunately some features of arrayQuality are not compatible with
versions of Hexbin greater than 1.0.10 at the moment. The best way to
solve this problem would be to install hexbin 1.0.10 either from
Bioconductor 1.5 or from our web site at
http://www.arrays.ucsf.edu/software/.
Best,
Agnes
-----Original Message-----
From: Rob J Goedman [mailto:goedman@mac.com]
Sent: Sat 5/28/2005 8:13 AM
To: bioconductor@stat.math.ethz.ch
Cc: Paquet, Agnes
Subject: maQualityPlots (qpHexbin) question
Hi,
Am I using the right versions of arrayQuality and hexbin in BioC 1.6?
Package: arrayQuality
Version: 1.0.11
Date: 2005-04-10
Package: hexbin
Version: 1.2.7
Date: 2005-04-06
Working through the 'Quick start guide for marray' I ran into a
problem
in step 6 [ library(arrayQuality); maQualityPlots(mraw) ]:
Error in seq.default(0, 1, length = min(17, maxcnt)) :
length must be non-negative number
In addition: Warning message:
no finite arguments to max; returning -Inf
Traceback shows it is in qpHexbin and looking at the function and
documentation shows bin is an S4 object of class hexbin and mac$cnt
this cannot access the slot 'count'. After fixing that, it runs into:
Error in qpHexbin(mnorm, main = "MA-Plot :: Norm") :
couldn't find function "hexagons"
Error in qpHexbin(mnorm, main = "MA-Plot :: Norm") :
couldn't find function "hex.legend"
Which I also changed as in below file qpHexbin.R. The library version
I've
renamed qpHexbin-orig.R.
Rob
??