User: Boris Umylny

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Boris Umylny120
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Posts by Boris Umylny

<prev • 12 results • page 1 of 2 • next >
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snapCGH plotting
... Hi all, Two questions about plotting functions in snapCGH library: 1. Is there a way to get X/Y positional information for the plot, perhaps some thing similar to qqplot, which plots the graph and also returns a list of components? 2. Is there a way to plot Chromosomal Regions directly, without ha ...
go graph snapcgh written 10.3 years ago by Boris Umylny120
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BeadarraySNP/read.SnpSetIllumina
... Hi, We are trying to use beadarraySNP on Illumina sample files. We are using R 2.9 with bioconductor 3.4. Please, if any one can help us it would be most appreciated. At this time we have access only to final report files, so we are constructing samplesheet manually based on the documentation: ...
beadarraysnp written 10.3 years ago by Boris Umylny120
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Consulting project
... I apologize in advance if this is not a proper forum for this kind of post. We are looking for an individual to help us integrate some of the Bioconductor tools and a few other algorithms into our product. The work would be done in Chiang Mai, Thailand and have an estimated duration of 3-4 month ...
written 10.7 years ago by Boris Umylny120
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Comment: C: From eSet to AffyBatch Object
... Martin, Let me apologize in advance if I made a silly mistake - my programming skills are fairly limited. I've attached two files to this e-mail. R.in contains the R script and R.out is the screen capture of the output produced by the script. R command was invoked with "--vanilla". Both files a ...
written 10.7 years ago by Boris Umylny120
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Comment: C: From eSet to AffyBatch Object
... Thank you very much for your help! I wound up using Martin's suggestion for density and boxplots. As Jenny pointed out it does not make much sense to run image on an ExpressionSet. However, that does require users to utilize AffyRead even if they are processing their data with just.rma. However, ...
written 10.7 years ago by Boris Umylny120
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From eSet to AffyBatch Object
... Hi, I am working with affy library from Bioconductor 2.3. The library contains functions (hist, image and boxplot) that work directly on AffyBatch object, but apparently not on ExpressionSet/eSet object. After I use rma, expresso or mas5 to do background correction and normalization I get an eSet ...
geneplotter affy written 10.7 years ago by Boris Umylny120 • updated 10.7 years ago by Martin Morgan ♦♦ 24k
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Comment: C: Bioconductor affy package installation issues
... Dear Wolfgang and Martin, Thank you very much for your suggestions. Looks like my problem was entirely self-inflicted - I did not do a "make uninstall" when upgrading to R 2.8.1, which kept some old versions of bioconductor libraries. A complete uninstall and a re-installation of R appears to hav ...
written 10.7 years ago by Boris Umylny120
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Comment: C: Bioconductor affy package installation issues
... Robert, Thank you very much for your reply. I tried to run biocLite(), however that failed (messages below the signature). I then tried to load affy using biocLite("affy"), that failed again with the same messages as last time. Should I reinstall R? Thank you in advance for your help. Sincere ...
written 10.7 years ago by Boris Umylny120
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Bioconductor affy package installation issues
... Dear All: I have upgraded our R to 2.8.1 version and attempted to reinstall the affy package from bioconductor. The installation attempt failed (the R output is below my signature). During the installation I was running R as root. Any suggestion you may have about this issue would be greatly app ...
written 10.7 years ago by Boris Umylny120 • updated 10.7 years ago by Martin Morgan ♦♦ 24k
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Comment: C: Limma: Question about extracting 2-channel data
... Dear Alex, Thank you very much for your kind reply. The RG.MA function is exactly what we were looking for. I am sorry to trouble you with such a trivial question. Thank you again. Sincerely, Boris Umylny On Thursday 29 January 2009 05:57:03 pm Axel.Klenk at actelion.com wrote: > Dear B ...
written 10.8 years ago by Boris Umylny120

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Popular Question 10.3 years ago, created a question with more than 1,000 views. For From eSet to AffyBatch Object

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