User: afreedman405

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Harvard University, Cambridge, Massachusetts, USA
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Posts by afreedman405

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edgeR reinstall failure: edgeR.rdb' is corrupt
... Running R ver. 3.4.0, after generating an error message with an edgeR load, I updated bioconductor and then re-installed, i.e. via biocLite("edgeR") library(edgeR) produced the following error: Error: package or namespace load failed for ‘edgeR’ in get(Info[i, 1], envir = env):  lazy-load database ...
edger package installation written 12 months ago by afreedman4050 • updated 12 months ago by Aaron Lun20k
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Comment: C: LEA won't run lfmm sequentially and independently on individual environmental va
... it seems that for LEA, 0 != NULL, but somehow translates into 1. Omitting the -d arg altogether results in lfmm iterating all of the environmental variables. go figure. ...
written 14 months ago by afreedman4050
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Tutorial: LEA won't run lfmm sequentially and independently on individual environmental variables when d set to 0
... according to the package doc, when running lfmm in LEA, the def for -d is "An integer corresponding to the fit of lfmm model with the d-th variable only from environment.file. By default (if NULL and all is FALSE), fit lfmm with each variable from environment.file sequentially and independently." ...
tutorial lea lfmm written 14 months ago by afreedman4050 • updated 14 months ago by eric.frichot0
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Comment: C: DEseq2 load failure after successful install
... Actually, it looks like I'm having the same problem with edgeR too. Both ~/Library/R/3.4/library/edgeR and Library/R/3.4/library/DESeq2 directories exist, and they aren't empty either. And the error messages indicate the problem is not, as with a previous post, trying to load from a library director ...
written 14 months ago by afreedman4050
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DEseq2 load failure after successful install
... After updating my R version to 3.4.0 on a mac, after successfully re-installing sundry bioconductor modules, including DESeq2, when I load DESeq2 I get the following: library("DESeq2") Loading required package: S4Vectors Loading required package: stats4 Loading required package: BiocGenerics Loadin ...
deseq2 written 14 months ago by afreedman4050 • updated 14 months ago by Hervé Pagès ♦♦ 13k

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