User: F Duan

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F Duan100
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Posts by F Duan

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Comment: C: RMA question
... Something like "rma(data, background = MAS, normalize = FALSE)" will work for you. Actually, there are a lot of options for users to choose. good luck. Frank Quoting Fangxin Hong : > There are some alternatives to do background correction and normalization > separately, and you can specif ...
written 15.1 years ago by F Duan100
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Answer: A: which method in the fonction normalize()
... Default should be "quantile" if I remember correct. Quoting gregory voisin : > hie, > i would like to know, which method is used in the fonction normalize > > which difference betwen > datanormal<-normalize(data) > datanrormal<-rma(data) > > ?? > > thanks > t ...
written 15.1 years ago by F Duan100
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How to save image to JPEG version under Linux?
... Dear All, I used "image()" function to create an image in Affy package under Linux. However, I didn't find the option to save the pop-up image into JPEG like what I did under windows. Could anyone tell me how to do that? Thanks a lot. Frank ...
affy written 15.2 years ago by F Duan100 • updated 15.2 years ago by Sean Davis21k
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Comment: C: how to do MAS background correction for Mismatch?
... Thanks a lot. I made a stupid mistake there. Frank Quoting "James W. MacDonald" : > F Duan wrote: > > Dear All, > > > > I am using "bg.correct.mas" to correct background for both PM and MM. The > > default is for PM, for example, "bg.correct.mas(mydata)". Could anyone ...
written 15.2 years ago by F Duan100
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how to do MAS background correction for Mismatch?
... Dear All, I am using "bg.correct.mas" to correct background for both PM and MM. The default is for PM, for example, "bg.correct.mas(mydata)". Could anyone tell me how to do it for Mismatch? Thanks a lot. Frank ...
written 15.2 years ago by F Duan100 • updated 15.2 years ago by James W. MacDonald51k
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Answer: A: split.AffyBatch
... Youraffy[,1:3] # part I Youraffy[,4:9] # part II Frank -----Original Message----- From: bioconductor-bounces@stat.math.ethz.ch [mailto:bioconductor-bounces@stat.math.ethz.ch] On Behalf Of Wenbin Liu Sent: Wednesday, July 21, 2004 13:08 To: bioconductor@stat.math.ethz.ch Subject: [BioC] split.Affy ...
written 15.3 years ago by F Duan100
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Answer: A: what normalization method does mas5 use
... Oh, no, mas5 assigns a scaling factor: default is 500. Frank -----Original Message----- From: F Duan [mailto:f.duan@yale.edu] Sent: Wednesday, July 14, 2004 15:22 To: 'Brian Bennett'; 'bioconductor@stat.math.ethz.ch' Subject: RE: [BioC] what normalization method does mas5 use I believe it's also ...
written 15.4 years ago by F Duan100
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Answer: A: what normalization method does mas5 use
... I believe it's also quantile if you use affy package. Frank -----Original Message----- From: bioconductor-bounces@stat.math.ethz.ch [mailto:bioconductor-bounces@stat.math.ethz.ch] On Behalf Of Brian Bennett Sent: Wednesday, July 14, 2004 14:26 To: bioconductor@stat.math.ethz.ch Subject: [BioC] wha ...
written 15.4 years ago by F Duan100
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Answer: A: how to reduce the file size of scatter plot matrix
... I am using R/Bioconductor under windows. When I want to copy some plot into word or PowerPoint, I often select the option "copy as matfile" instead of "copy as bmp". I don't know if that could serves your needs. Good luck, Duan -----Original Message----- From: bioconductor-bounces@stat.math.ethz. ...
written 15.4 years ago by F Duan100
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Two questions about image() function in Affy package
... Hello, All, I am recently beginning to touch Bioconductor and have a lot of naďve questions. Here are two of them which I failed to find out answers from the archive searching. First, could anyone tell me how to draw a deep-blue Affymetrix image through Image() function in Affy package? The de ...
microarray go affy written 15.4 years ago by F Duan100

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Popular Question 15.1 years ago, created a question with more than 1,000 views. For How to save image to JPEG version under Linux?

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