User: Weiwei Shi

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Weiwei Shi1.2k
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Posts by Weiwei Shi

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reverse engineering package
... Hi there, Are there other packages like minet or qpgraph in bioC but which analyze data in a time-dependent mode? Thanks, Weiwei -- Weiwei Shi, Ph.D Research Scientist GeneGO, Inc. "Did you always know?" "No, I did not. But I believed..." ---Matrix III [[alternative HTML version delete ...
minet qpgraph written 9.5 years ago by Weiwei Shi1.2k • updated 9.5 years ago by Robert Castelo2.3k
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lumi package, 1.10.2 version but still has this problem
... Hi I am using vst from lumi package and got this problem: Error in lm.fit(x, y, offset = offset, singular.ok = singular.ok, ...) : 0 (non-NA) cases I checked previous post and it seems it is due to the version, but after check my version(see below), it still has that problem> > sessionI ...
lumi written 10.0 years ago by Weiwei Shi1.2k
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lumi package
... Finally it works. I think the problem I posted before are caused by: 1. the tgz file could be corrupted at the first time; 2. my way of upgrade from 2.6 to 2.9 was not right I followed Marin's method, and it works. Thanks for all the helps. Weiwei On Thu, Oct 1, 2009 at 2:25 AM, Benilton Carv ...
cancer lumi bus written 10.0 years ago by Weiwei Shi1.2k
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Comment: C: lumi package
... Thanks for all advice! Last time, I upgrade from 2.5 to 2.6, I remember it works in that way; maybe this time, there is some change. I want to make sure of my understanding, so if I follow Martin's suggestion, each time I upgrade my R, those 3 lines of codes can help me re- install all of my previ ...
written 10.0 years ago by Weiwei Shi1.2k
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Comment: C: lumi package
... Actually both 3 and 5 method work. I found that issue too. It could be because the upgrade since to save my previous packages, I just copy my previous packages from Library/Framework/R.framework/.../2.6/resources/library to 2.9's library. Do you think that cause the problem? I did not reinstall ba ...
written 10.0 years ago by Weiwei Shi1.2k
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Comment: C: lumi package
... The installation seems to work now but the loading got some error... > library(lumi) Loading required package: annotate Loading required package: Biobase Loading required package: tools Welcome to Bioconductor Vignettes contain introductory material. To view, type 'openVignette()'. To cit ...
written 10.0 years ago by Weiwei Shi1.2k
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Comment: C: lumi package
... still not works. > source("http://www.bioconductor.org/biocLite.R") > biocLite("lumi") Using R version 2.9.2, biocinstall version 2.4.12. Installing Bioconductor version 2.4 packages: [1] "lumi" Please wait... Warning: unable to access index for repository http://brainarray.mbni.med.umich.ed ...
written 10.0 years ago by Weiwei Shi1.2k
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lumi package
... Hi there I got the error from installing this package? Any suggestion? Thanks, Weiwei > source("http://www.bioconductor.org/biocLite.R") > biocLite("lumi") Running biocinstall version 2.1.11 with R version 2.6.1 Your version of R requires version 2.1 of BioConductor. trying URL ' http://bio ...
written 10.0 years ago by Weiwei Shi1.2k • updated 10.0 years ago by Steve Lianoglou12k
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GO Term2entrezgene
... Hi, I am wondering if I can get a list (x) for BP category of GOTERM whose structure is like: x$GOTermID1: entrezgene id1, entrezgene id2..... x$GOTermID2: entrezgene id1, entrezgene id2..... ... I did not find any pdf which shows me how to get this. Thanks, -- Weiwei Shi, Ph.D Research Scie ...
category written 10.9 years ago by Weiwei Shi1.2k • updated 10.9 years ago by Sean Davis21k
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Comment: C: hyperGTest
... Hi, Before my performing this GO analysis, the 3 arrays' probes have been mapped to entrezgene ids (..... mapping between affy's probes and RefeSeqs by blasting probe sequence against human refseq sequence database. And every refseq id were then mapped to gene name of EntrezID based on Gene databas ...
written 10.9 years ago by Weiwei Shi1.2k

Latest awards to Weiwei Shi

Centurion 9.5 years ago, created 100 posts.

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