User: Dai, Hongying,

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Posts by Dai, Hongying,

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GO Analysis for Mouse Exon Array
... Dear friends, I need to perform GO pathway analysis for mouse exon 1.0 ST array using GOstats package. Here what I have done: 1. Read CEL data using oligo package library("pd.moex.1.0.st.v1") library(oligo) affyExonFS <- read.celfiles(list.celfiles()) exonCore <- rma(affyExonFS, ta ...
annotation pathways go limma gostats oligo written 7.7 years ago by Dai, Hongying,60 • updated 7.7 years ago by Benilton Carvalho4.3k
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Answer: A: GEOquery: how to extract experimental data? (confused)
... Hi, Jose and Sean I try to run the exactly same code as you guys provided to extract GS19044 data. But I failed with connection issue. Here is my code and system information: R> source("http://www.bioconductor.org/biocLite.R") # It connected to the cite successfully BioC_mirror = http://biocond ...
written 8.2 years ago by Dai, Hongying,60
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Comment: C: How to merge to two cel objects imported by oligo package
... Dr. Carvalho, I followed your code and IT WORKS!!! Thank you so much! I struggled an entire week trying to get this done. I have tried library(ff) before per Cary Vincent's suggestion. Since I might have other computer issues, library(ff) did not work at the beginning. When I sorted out other comp ...
written 8.3 years ago by Dai, Hongying,60
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Comment: C: How to merge to two cel objects imported by oligo package
... Dr. Carvalho, thank you very much! I tried to combine CEL files but I don't have enough RAM(2.75GB). R> FS3 <- combine(affyExonFS1, affyExonFS2) Error: cannot allocate vector of size 300.0 Mb Then I tried to combine RMA processed data instead of combining CEL files. R> exonCELs<-list ...
written 8.3 years ago by Dai, Hongying,60
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How to merge to two cel objects imported by oligo package
... Hi, Thank Cary Vincent and Christian for answering my previous question. I'm able to import Mouse Exon 1.0 ST array now. Due to my RAM memory restriction, I can only import one CEL file each time. Here is my code and it works. R>biocLite("pd.moex.1.0.st.v1") R>biocLite("olig") R>exonCELs ...
affy oligo written 8.3 years ago by Dai, Hongying,60 • updated 8.3 years ago by Benilton Carvalho4.3k
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Unable to read Affy Mouse Exon 1.0 ST array CEL file
... Hi, I try to import CEL files generated from Affy Mouse Exon 1.0 ST array. I have tried both Affy and Oligo packages and my computer has 2.75GB RAM. * Please let me know the following issue is package issue or computer RAM issue. * Can any one share code to read Affy Mouse Exon 1 ...
annotation cdf affy gcrma oligo written 8.3 years ago by Dai, Hongying,60 • updated 8.3 years ago by cstrato3.9k

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Popular Question 7.7 years ago, created a question with more than 1,000 views. For How to merge to two cel objects imported by oligo package

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