User: Mike Dewar

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Mike Dewar60
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60
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8 years, 9 months ago
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9 years, 1 month ago
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m*********@columbia.edu

Posts by Mike Dewar

<prev • 6 results • page 1 of 1 • next >
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topGO documentation / clarification
... Hi, I've been trying to figure out the usage of topGO for situations where all you have is a list of interesting probesets, along with all the probesets on a microarray. My problems, which have been discussed on the biostar webpage, seem to have been around the specification of geneSel and allGenes ...
microarray go topgo written 8.8 years ago by Mike Dewar60 • updated 8.8 years ago by Adrian Alexa400
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Applying classifiers derived from CMA
... Hi, I've trained up a classifier using the (so-far wonderful) CMA package. It validated well, and gives me predictions that agree well with my labels. I'd now like to use the classifier on a held-out data set, but for the life of me I can't figure out how to apply a classifier to a new example. Doe ...
cma written 9.0 years ago by Mike Dewar60
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Comment: C: code improvements
... Hello, I asked a question last week about how to submit patches. After hacking on the code ('annotationTools') for a while I realised (http://biostar.stackexchange.com/questions/1054/homology- bioconductor) that it was either the wrong package for the job or, what I think is more likely, a package ...
written 9.0 years ago by Mike Dewar60
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code improvements
... Hello, If I make some improvements to a piece of code included in Bioconductor, is there an 'official' way of submitting the improvements for future inclusion? Cheers, Mike Dewar - - - Dr Michael Dewar Postdoctoral Research Scientist Applied Mathematics Columbia University http://www.columbia.e ...
written 9.0 years ago by Mike Dewar60 • updated 9.0 years ago by Vincent J. Carey, Jr.6.3k
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Comment: C: normalisation + sam
... Hi Wolfgang, To get from the CEL files to a Bioconductor ExpressionSet is quite longwinded and, as it's not using Bioconductor, maybe not something I should abuse this list with. Instead, I've put the expression set I've generated up online at http://www.columbia.edu/~md2954/immgen.data Then, to ...
written 9.1 years ago by Mike Dewar60
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normalisation + sam
... Hi, I'm trying to use siggenes - sam() to look at differentially expressed genes of data taken from the Immunological Genome project (http://www.immgen.org/). A problem with this is that I have to perform the preprocessing of the original CEL files as they do not make the processed data available o ...
preprocessing siggenes written 9.1 years ago by Mike Dewar60 • updated 9.1 years ago by Wolfgang Huber13k

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