User: Susan Wilson

gravatar for Susan Wilson
Susan Wilson50
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50
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New User
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Last seen:
4 years, 8 months ago
Joined:
9 years, 8 months ago
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s*******@hpc.unm.edu

Posts by Susan Wilson

<prev • 5 results • page 1 of 1 • next >
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cmarrt.peak function does not work
... Hi, I have been trying to follow the Cold Spring Harbor tutorial with my own data. I'm stuck on the call to peaklist <- cmarrt.peak() call. Up to that point, everything seems to be working and making sense, including normalize.Probes and getRatio. I am using Sc03b_MR_v04.bpmap. Thanks in advanc ...
probe written 4.7 years ago by Susan Wilson50
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ChIPpeakAnno, callEnrichedRegions results have "holes"
... Hi, I have some ChIP-seq data which returns a fairly uniform set of scores with the computeMATScore function. When I export (rtracklayer) that data as a .wig file, IGV visually reinforces that fact. However, when I run callEnrichedRegions, no matter how I try and "relax" the thresholds, using eithe ...
yeast written 5.2 years ago by Susan Wilson50
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Problem with addGeneIDs and org.Sc.sgd.db
... Hi, I'm following the chip-seq tutorial at http://evop.bioinf.uni-leipzig.de/wp- content/uploads/2012/01/chipseq_tutorial.html, and trying to do it in parallel with some actual data I have from yeast. When I try to run addGeneIDs using the org.Sc.sgd.db annotation database, I get the following: & ...
annotation process written 5.3 years ago by Susan Wilson50 • updated 5.2 years ago by Marc Carlson7.2k
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How to generate bar files?
... Hi, Does anyone know how to generate bar files with rMAT? help(NormalizeProbes) says "The output can be saved as BAR file if the BAR argument specifies a filename, or as a parsed BAR file if argument output specifies a filename." Other than that, I cannot find anything relevant. Thanks. Susan ...
written 5.4 years ago by Susan Wilson50
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Affymetrix Human Exon Array MPS and PS files contain different probeset groups
... An embedded and charset-unspecified text was scrubbed... Name: not available Url: https://stat.ethz.ch/pipermail/bioconductor/attachments/20080306/ 783e114f/attachment.pl ...
written 9.7 years ago by Susan Wilson50 • updated 9.7 years ago by Williams, Alan40

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