User: cstrato

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cstrato3.8k
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Posts by cstrato

<prev • 432 results • page 1 of 44 • next >
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Answer: A: Gene level analysis of Affymetrix GeneChip Mouse Exon Arrays
... Dear Gordon, As you might know, from the packages mentioned package 'affy' cannot be used  for exon arrays; for this purpose package 'oligo' was created, which is  probably used by most people. As author of 'xps' I will only mention that 'xps' is able to do RMA normalization of exon arrays, also r ...
written 13 months ago by cstrato3.8k
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Answer: A: Xps configuration error on Ubuntu 16.04 despite root being installed
... Hi Anja, You have to delete/uninstall root version 5.34.30. Since I have no experience with Ubuntu and its repository I do not know how you have to deinstall it. However, searching the net I found the following link: https://help.ubuntu.com/community/EnvironmentVariables In addition to '.bashrc' ...
written 13 months ago by cstrato3.8k
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Answer: A: Xps configuration error on Ubuntu 16.04 despite root being installed
... Hi Anja, As Mike has already kindly mentioned, xps requires root_v5.34.36, as you can see from the INSTALL file:     http://bioconductor.org/packages/3.5/bioc/install/xps/INSTALL It mentions:    The source code as well as binaries for Linux and Mac OS X can be obtained    from: https://root.cern.c ...
written 13 months ago by cstrato3.8k
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Answer: A: content of cel file
... see:  http://media.affymetrix.com/support/developer/powertools/changelog/gcos-agcc/cel.html   ...
written 17 months ago by cstrato3.8k
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Answer: A: [xps]Analysis of Affymetrix Clarion S array using xps package
... Hi, Please note that HTA-2.0, MTA-1.0 and RTA-1.0 arrays are not supported by 'xps', see: https://stat.ethz.ch/pipermail/bioconductor/2014-March/058538.html Regards, Christian ...
written 18 months ago by cstrato3.8k
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Answer: A: [XPS]Installation of ups package in macOS Sierra
... Hi, Since you are using Mac OS Sierra, things are more complicated since: 1, the 'xps' binary which you can download from BioC was created for Mavericks and may not work on Sierra 2, There does not exist a binary of ROOT for Sierra, so you need to compile ROOT yourself. You can (and should) use th ...
written 18 months ago by cstrato3.8k
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Answer: A: xps package - import.expr.scheme help
... Hi,  The first error indicates an installation problem: - How did you install ROOT? - Did you set ROOTSYS and other variables as indicated in README? - Which version of ROOT are you using?  Please tell me the exact name of the ROOT file that you have downloaded. Regards, Christian ...
written 18 months ago by cstrato3.8k
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Answer: A: xps package - import.expr.scheme help
... Hi, First, please note that my examples in 'script4schemes.R' are only examples. You need to adapt them to your needs: - RG_U34A.na31.annot.csv is very old, you should download the newest version - did you create the directories before using 'file.path(scmdir, "na31")'? Second, I consider it a bad ...
written 18 months ago by cstrato3.8k
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Answer: A: xps package - import.expr.scheme help
... Hello, To create expression 'schemes' package 'xps' uses the original cdf, probe and annotation  files from Affymetrix, which all contain the name of the array, in your case 'RG_U34A'. Method 'import.expr.scheme()' is expecting files containing the name of the array. See the examples 'xps/examples ...
written 18 months ago by cstrato3.8k
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Answer: A: Cannot install xps package, Mac OS 10.11, R 3.3
... I am glad to hear that you could now install xps, Christian   ...
written 20 months ago by cstrato3.8k

Latest awards to cstrato

Scholar 18 months ago, created an answer that has been accepted. For A: [XPS]Installation of ups package in macOS Sierra
Scholar 2.3 years ago, created an answer that has been accepted. For A: MAS5 algorithm in mas5() function of xps function when process Human Gene 1.0 ST
Scholar 3.3 years ago, created an answer that has been accepted. For A: HuGene 2.0 ST CDF files and xps
Scholar 3.9 years ago, created an answer that has been accepted. For A: HuGene 2.0 ST CDF files and xps
Centurion 4.0 years ago, created 100 posts.

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