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Error Could Not Find Function Normalize.quantiles

I am trying to normalize 4 sample sets of CEL data > generated by using Tiling array. You can use either normalizeBetweenArrays() or normalizeWithinArrays(). Thank you! Ambatipudi [[alternative HTML version deleted]] ADD COMMENT • link • Not following Follow via messages Follow via email Do not follow modified 7.5 years ago by Steve Lianoglou ♦ 11k • check over here

Content Search Users Tags Badges Help About FAQ Access RSS Stats API Use of this site constitutes acceptance of our User Agreement and Privacy Policy. Hello, I create a matrix with my intensities datas and read it in R. How To Analyze These Biological Data? Or even does it?

Dear Biostar users, I am using ggbio to add a chromosome ideogram over data along the length of ... ADD REPLY • link modified 3.4 years ago • written 3.4 years ago by David Westergaard • 1.3k This from GEO database. Hello. Ambatipudi > > [[alternative HTML version deleted]] > > _______________________________________________ > Bioconductor mailing list > [email protected] > https://stat.ethz.ch/mailman/listinfo/bioconductor > Search the archives: > http://news.gmane.org/gmane.science.biology.informatics.conductor > _______________________________________________ Bioconductor mailing list [email protected] https://stat.ethz.ch/mailman/listinfo/bioconductor

Dear all, I have three question about RNASeq analysis of my data using DESeq2. using regular expression matching:preprocessCore::normalize.quantilesQuantile NormalizationpreprocessCore::normalize.quantiles.in.blocksQuantile Normalization carried out separatelywithin blocks of rowspreprocessCore::normalize.quantiles.robustRobust Quantile NormalizationpreprocessCore::normalize.quantiles.use.targetQuantile Normalization using a specified targetdistribution vectorType '?PKG::FOO' to inspect entry 'PKG::FOO TITLE'.=====Hope that helps,-steve--Steve LianoglouGraduate Student: Physiology, How to make lumi accept .txt data? Can somebody > please > help.

Or is it possible to convert data.frame into an affyBatch object? an error in normalize.quantiles {preprocessCore} function? I am trying to normalize 4 sample sets of CEL datagenerated by using Tiling array. https://support.bioconductor.org/p/28372/ Survival analysis of TCGA patients integrating gene expression (RNASeq) data I found myself being often confused about how to do this and by various posts and tutorials onlin...

I did this once, if you want I can try to find it for you. missing functions in affy package To Whom it May Concern, I use the function "normalize.quantiles" in the preprocessCore/affy pac... BTW, you can always just manually create an affyBatch object, though it doesn't look completely trivial. It works now.DorothyPost by Steve LianoglouBy the way ..Post by dorothyc------library(affy)normalize.quantiles(intensity.M,copy=TRUE)Error: could not find function "normalize.quantiles"------R> library(preprocessCore)R> normalize.quantiles(...)--Steve LianoglouGraduate Student: Computational Systems Biology| Memorial Sloan-Kettering Cancer Center| Weill Medical College of

output of sessionInfo()) ADD COMMENT • link modified 17 months ago • written 17 months ago by Diego Diez • 700 Please log in to add an answer. http://grokbase.com/t/r/bioconductor/096yy5t7np/bioc-normalize-quantiles-function-not-recognized-by-r I tried the following code.But I got ... I have a doubt: I transfo... How to Write a loop for a big matrix?

I tried to turn my matrix into a `ff` object as the example below: library(ff) df <- ' sample1 sample2 sample3 1834.2 1743.4 1384 4711 4922 4650 4555 1387 4650.8 2588 check my blog I am trying to normalize 4 sample sets of CEL data generated by using Til... Hi all, I am using normalize.quantiles in package preprocessCore to deal with my data now, and... I am examining data from a 2D gel experiment, but my question is about a broader issue of ...

NA and quantile normalization Hi, I am new to R, I am doing quantile normalization with a data consisting of a matix 384 X 1... Normalization of microarray data? using regular expression matching: preprocessCore::normalize.quantiles Quantile Normalization preprocessCore::normalize.quantiles.in.blocks Quantile Normalization carried out separately within blocks of rows preprocessCore::normalize.quantiles.robust Robust Quantile Normalization preprocessCore::normalize.quantiles.use.target Quantile Normalization using a specified target distribution vector Type http://strobelfilms.com/error-could/error-could-not-find-function-read-dbf.html fr [Download message RAW] Hi R.

normalize.quantiles generating incorrect output Hello everybody, I'm using the normalize.quantiles function from the "affy" package version 1.3.... chromosome name in summarizeOverlaps for RNASeq data  For a while I used quantile normalization followed by t-test or cuffdiff for analysis of RNASeq.... Error in quantro function Hi, I am using the function "quantro" (library R-quantro) to test the distribution of beta value...

I think I have loaded all required > packages > but when I call normalize.quantiles function in R, I get an error > message : > Error: could not find function

featureData: none experimentData: use'experiment... why does ReportingTools does not work with yeast annotations Hi, I'm having trouble using the ReportingTools package with the yeast genome. Hello, I am trying to do background correction/ quantile normalization on a .txt file of express... Quantile normailization and NA Hi, I am new to R, I am doing quantile normalization with a data consisting of a matix 384 X 12...

affy to normalize others single chanels... I am new to R (Python and C background). There are few pointers: 1) One cannot run normal functions on ff objects. have a peek at these guys When I tried some of the normalization methods, I got the following error: > dat.eset <- threestep(dat.fp,background.method="RMA.2",normalize.method="quantile",summary.method="median.polish") Error in threestep(dat, background.method = "RMA.2", normalize.method = "quantile", : argument is data.frame threestep

little bug in affy Hi I get a segmentation fault with the following: library(affy) test<-NULL normalize.quantile... Some of these methods are: threestep, mas5calls, mascallsfilter, justMAS and rma. fr Date: 2009-06-30 22:01:14 Message-ID: 20090701000114.v5grwt05c0gs4gko () imp !