User: patrick.schordert

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p****************@molbio.mgh.harvard.edu

Posts by patrick.schordert

<prev • 6 results • page 1 of 1 • next >
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Comment: C: Coerce several Granges objects to a GrangeList
... Thanks, but I would rather stick with one environment (R). Otherwise, my brains are going to pop out of my skull. I just find it hard to believe that there is nothing out there given it is such a widespread method. Thanks for any help, p. ...
written 3.2 years ago by patrick.schordert20
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Answer: A: Metagenomic analysis: Aligning ChIPseq data on TSS
... Yes, you are absolutely right and I don't need to stick with this particular approach. The problem that I am facing is that there are so many different packages out there that all seem great, but which are hard to get around. It might sound stupid, but I am simply trying to (for now) explore my dat ...
written 3.2 years ago by patrick.schordert20
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Answer: A: Coerce several Granges objects to a GrangeList
... Hi Jim, Sorry, I got it and tried to delete the post, but didn't find how. It was a 'stupid' question. Just wrote GRangesList(GRange1, GRange2). I'm trying align some ChIPseq data to TSSs and am following the "A collection of ChIP-seq analyses tools' pdf from Mark Robinson (June 22, 2013). It is s ...
written 3.2 years ago by patrick.schordert20
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Coerce several Granges objects to a GrangeList
... Hi, I have three GRanges objects that I am trying to coerce into a GRangesList to feed to the enrichmentPlot() function found in the Repitools package. The final goal is to align my ChIPseq peaks to features like TSSs or enhancers. Any help is welcomed. Thanks! ...
granges grangeslist chip written 3.2 years ago by patrick.schordert20
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Answer: A: Metagenomic analysis: Aligning ChIPseq data on TSS
... Thanks Hervé, You are probably right. I have tried your method but am still getting the following error message: Error in (function (classes, fdef, mtable)  :    unable to find an inherited method for function ‘endoapply’ for signature ‘"Rle"’ See below for the sessionInfo which I had forgotten t ...
written 3.2 years ago by patrick.schordert20
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Metagenomic analysis: Aligning ChIPseq data on TSS
... Hi everybody, I am fairly new to NGS analysis, so this might be an easy question to answer, but I�ve been desperately trying to get it to work with no success for several days now. I have three ChIP-seq datasets on which I am trying to do metagenomic analysis. Basically, I would like to average an ...

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