User: Yihuan Xu

gravatar for Yihuan Xu
Yihuan Xu130
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130
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Last seen:
11 years, 6 months ago
Joined:
15 years, 2 months ago
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y********@jefferson.edu

Posts by Yihuan Xu

<prev • 13 results • page 1 of 2 • next >
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AnnBuilder problem
... Dear all, I used AnnBuilder to annotate a customed array. One of gene is pla2g2a, its Access number is NM_011108, its ID number in my array is 4842. however I could not get its symbol from the annotation package I made, neither in the KEGG pathway (mmu00590) it should belongs. Following is my code ...
organism annotate annbuilder written 11.5 years ago by Yihuan Xu130
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KEGG pathway
... Dear all, I am interested in a gene pla2g2a, which KEGG entry is 18780. DBGET resurlt for mmu18780 in KEGG website shows there are 9 pathways containning this gene. I checked one of these pathways (mmu00590) using KEGG package, however 18780 didn't show up in the pathway. my code: > library(KEG ...
pathways written 11.6 years ago by Yihuan Xu130 • updated 11.6 years ago by Marc Carlson7.2k
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AnnBuilder problem
... Dear all, I used AnnBuilder to annotate a customized mouse arrays. A folder 'costommice' is generated. However I don't know how to use it. How can I install it in R? Can I use it as KEGG package? Thank you. Yihuan Here is the code I used: library(AnnBuilder) myBase <- "C:\\TJU\\Siracusa\\GSE ...
organism annotate annbuilder written 11.7 years ago by Yihuan Xu130 • updated 11.7 years ago by Martin Morgan ♦♦ 23k
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KEGG package
... Dear All, I would like to use GSEA to analyze customed microarrays. I need to map genes from ACC number to KEGG pathways. How can I do it using KEGG package? I could not find any documents for KEGG package. Is there any example? Best, Yihuan ...
pathways written 11.7 years ago by Yihuan Xu130 • updated 11.7 years ago by John Zhang2.9k
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simpleaffy problem - drosophila2
... Hi, All, I am using simpleaffy package to analyze affydata. Affy chip type is drosophila2. I got following error message: > qc<-qc(raw25, x.mas5) Error in qc.affy(unnormalised, ...) : I'm sorry, I do not know about chip type: drosophila2cdf I already installed dropsophila2 CDF on my compute ...
drosophila2 cdf affy affydata simpleaffy written 11.9 years ago by Yihuan Xu130
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how to enlarge memory
... Hi, There, How can I enlarge memory when I use Affy package? Thanks a lot. Yihuan ...
affy written 12.1 years ago by Yihuan Xu130 • updated 12.1 years ago by James W. MacDonald49k
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affy-getPosXForCEL()
... Dear all, I tried to read x and y position from .cel file in an object. In the manule, there are two functions getPosXForCEL() and getPosYForCEL(). But I could not find it in R. Does anybody know about it? Thank you very much. Yihuan ...
written 13.4 years ago by Yihuan Xu130
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affy package 'Error in computeExprSet'
... An embedded and charset-unspecified text was scrubbed... Name: not available Url: https://stat.ethz.ch/pipermail/bioconductor/attachments/20050811/ 38c2a9dd/attachment.pl ...
written 13.7 years ago by Yihuan Xu130 • updated 13.7 years ago by Seth Falcon7.4k
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Annotate package
... Can 'annotate' package annotate microarray data other than affymetrix? And how? Thank you. Yihuan ...
microarray annotate written 14.3 years ago by Yihuan Xu130 • updated 14.3 years ago by rgentleman5.5k
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Limma design matrix
... Hi, I am using Limma for a non-affy single channel dataset. the design is a 2X2 factorial design, but one chip is missing. array gender genotype 1 M mutant 2 M mutant 3 F mutant 4 F mutant 5 M wild 6 ...
limma written 14.8 years ago by Yihuan Xu130 • updated 14.8 years ago by Gordon Smyth37k

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