User: Michael Gormley

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Posts by Michael Gormley

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Job: Job: Senior Scientist, Oncology Translational Research Johnson and Johnson
... Apply here: https://goo.gl/m14Gkc Janssen Research & Development, L.L.C., a Johnson & Johnson company, is recruiting for a Senior Scientist, Computational Biology, Oncology Translational Research located in Spring House, PA with up to 10% travel. Janssen Research & Development, LLC dis ...
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Job: Postdoctoral fellow, computational biology
... Apply at: http://jobs.jnj.com/job/Spring-House-Janssen-Post-Doctoral-Fellows%2C-Computational-Biology-Job-PA-19477/241331600/ Description Janssen Research and Development, L.L.C., a member of Johnson and Johnson's Family of Companies, is recruiting for Post-Doctoral Fellows, Computational Biology ...
job written 3.8 years ago by Michael Gormley60
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Comment: C: getSequence with biomaRt
... Hi Marc, Thanks for the input. I looked into using the GenomicRanges package but I thought I had to generate my own TxDb and I didn't realize this would be associated with EntrezGene IDs. Using the already generated TxDb from bioconductor makes this much easier. I actually coded up my own versio ...
written 6.9 years ago by Michael Gormley60
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SSOAP functions
... I am trying to write code to access some of the KEGG API functions that are not available in KEGGSOAP using SSOAP. I have figured out how to access the basic KEGG API functions such as list_organisms, list_pathways, etc. I believe I have a problem when the function expects the input in the form of ...
keggsoap written 7.4 years ago by Michael Gormley60
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global test multiple testing correction
... In the paper and vignette describing the globaltest package, the authors mention the need for multiple testing when testing large numbers of pathways or functional gene groups. While I agree the number of statistical tests does need to be accounted for, I do not understand the need for additional m ...
pathways globaltest written 10.0 years ago by Michael Gormley60 • updated 10.0 years ago by DEBASHIS GHOSH40
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Comment: C: Pd info package affy 10K array
... This is the same source where I obtained the files originally. I have brought this issue to the attention of affy technical support. Hoping they can get me the correct probe sequence file. On Thu, Jun 26, 2008 at 2:26 PM, James W. MacDonald wrote: > Interesting. > > To test the problem ...
written 10.3 years ago by Michael Gormley60
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Pd info package affy 10K array
... I get an error when running the makePdInfoPackage function to make a PdInfo package for the 10K mapping array. The output from the function reads: > makePdInfoPackage(pkg,destDir=".") Creating package in ./pd.mapping10k.xba142 loadUnitsByBatch took 22.86 sec loadAffyCsv took 2.79 sec Error in s ...
written 10.3 years ago by Michael Gormley60 • updated 10.3 years ago by James W. MacDonald48k
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karyogram
... Are there any packages available for making a karyogram with ideograms of each chromosome? I have looked at GenomeGraphs, Idiogram and a number of other packages but they seem like they have been designed to draw a single chromosome at a time. Ideally, I would like to produce pictures similar to ...
idiogram genomegraphs written 10.3 years ago by Michael Gormley60 • updated 10.3 years ago by Oosting, J. PATH550

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