User: karl.stamm

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karl.stamm10
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Location:
United States
Last seen:
8 months, 3 weeks ago
Joined:
4 years, 8 months ago
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k*********@gmail.com

Posts by karl.stamm

<prev • 4 results • page 1 of 1 • next >
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Comment: C: Bioconductor Git/GitHub Mirrors
... but what is in update_remotes.sh   ...
written 8 months ago by karl.stamm10
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Comment: C: DESeq2-->GO term heat map
... There are choices to how you define the sample's performance in each GO term. I have some ideas for the way to do it. Try the package rgsepd which was designed for this purpose.  ...
written 8 months ago by karl.stamm10
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Problem using GOTERM[["x"]] from GO.db
... I maintain "rgsepd" which uses "DESeq2" and "goseq" to run an annotation pipeline. Internally, when I have a character representation of a GO term I'm interested in more information about, I use the list interface (double-bracket) to a global exported by the GO.db library.  The command GOTERM[["GO: ...
go.db written 16 months ago by karl.stamm10 • updated 16 months ago by Martin Morgan ♦♦ 23k
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org.Hs.eg deprecation and txDb usage
... Some developers have run into a new WARNING on the automatic package builder (bioc devel 3.1), specifically that org.Hs.egCHR is deprecated, and we should look to some other packages for transcript annotation.  A question was raised on the devel mailing list, How should we make these changes? They ...
annotation org.hs.eg.db written 4.7 years ago by karl.stamm10 • updated 4.7 years ago by Marc Carlson7.2k

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