User: mcall

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mcall0
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Posts by mcall

<prev • 8 results • page 1 of 1 • next >
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BioMart webservice returned an invalid result
... Hi! Since yesterday I'm trying to annotate based on Ensembl ids, however, in some cases it works, but the majority of the times that I try, I receive the following error: Batch submitting query [=================================================================================>------] 94% et ...
annotation biomart software error written 3 months ago by mcall0 • updated 3 months ago by Mike Smith4.0k
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Comment: C: possible Rtracklayer issue: TxDb errors in GenomicFeatures package-- cannot load
... Hi, I updated rtracklayer, but I get the same error, over and over. Is there anotherway to fix it?  M.  ...
written 22 months ago by mcall0
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Comment: C: makeTxdbFromUCSC in genomicfeatures package is broken
... Did you find a way to solve the problem?  ...
written 22 months ago by mcall0
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Comment: C: makeTxdbFromUCSC in genomicfeatures package is broken
... > sessionInfo() R version 3.4.0 (2017-04-21) Platform: x86_64-pc-linux-gnu (64-bit) Running under: Ubuntu 16.04.2 LTS Matrix products: default BLAS: /usr/lib/libblas/libblas.so.3.6.0 LAPACK: /usr/lib/lapack/liblapack.so.3.6.0 locale: [1] LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C L ...
written 22 months ago by mcall0
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Comment: C: makeTxdbFromUCSC in genomicfeatures package is broken
... Hi.  I've installed and updated the rtracklayer, but I still get the same error... Anyother ideas?  ...
written 22 months ago by mcall0
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Comment: C: Is anyone able to explain the statistics behind the dmpFinder function in minfi
... Hi James. Many thanks for you reply. Maybe I should give you more background. I am trying to select an N amount of probes that are differentially methylated based on a linear model (for further analysis that talking about it doesn't fit in this question) Since I have a constraint to choose N amo ...
written 3.1 years ago by mcall0
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Answer: A: Is anyone able to explain the statistics behind the dmpFinder function in minfi
... Hi James. Many thanks for you reply. I added my answer as a comment. ...
written 3.1 years ago by mcall0
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Is anyone able to explain the statistics behind the dmpFinder function in minfi package?
... Hi Everyone! I am using dmpFinder to find dmp on a methylation experiment. As the authors said, dmpFinder is a wrapper around limma, so I tried to emmulate the steps (that I thought) were followed by the dmpFinder function... After examining the function @HansenLab's Github I found a series of ste ...
limma minfi methylation dmpfinder written 3.1 years ago by mcall0 • updated 2.4 years ago by vulegom0

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