User: Sandrine Dudoit

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Posts by Sandrine Dudoit

<prev • 17 results • page 1 of 2 • next >
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Answer: A: Software for clest?
... Hi Peter, Thanks for your interest in Clest. Unfortunately, we do not have software for this. Best regards, Sandrine ---------------------------------------------------------------------- --------- Sandrine Dudoit, Ph.D. E-mail: sandrine@stat.berkeley.edu Assistant Professor ...
written 14.0 years ago by Sandrine Dudoit170
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Answer: A: Westfall and Young "maxT"
... Hello, > I've got a question regarding the Westfall and Young "maxT" procedure > (implemented in Bioconductor package multtest, function mt.maxT). > > If one calculates a two sample T-statistic assuming unequal variances > for the groups, then the resultant statistic is only approxim ...
written 14.4 years ago by Sandrine Dudoit170
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Answer: A: multtest
... Hi Stefanie, Thank you for the feedback. We have updated the code and fixed the help pages to clarify the issues you raised about the computation of the Wilcoxon test statistic. The revised package is available under "Developmental Packages". Below are answers to your three questions. > 1. Wha ...
written 14.5 years ago by Sandrine Dudoit170
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Answer: A: How to unzip the software demo for the short course: Statistical Methods and Sof
... Hello, If you are a windows user, you should download the windows version of the package available at http://www.bioconductor.org/workshops/EMBO03/embo03.html You can then use standard R installation procedures described in the R manuals or FAQ http://www.r-project.org Best regards, Sandrine -- ...
written 14.5 years ago by Sandrine Dudoit170
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Answer: A: beginner question
... Hi Matthew, Wish I had time to cover more material during the EBI workshop ... Instructions for installing R and Bioconductor are given in the FAQ http://www.bioconductor.org/faq.html#How can Bioconductor be obtained The slides and labs for the EBI and other courses are posted in the "Short Cours ...
written 14.6 years ago by Sandrine Dudoit170
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Answer: A: Multtest Question!
... We used Gaussian p-values simply as an example. You can use the function mt.maxT to obtained permutation unadjusted p-values as well as adjusted p-values. In general, the Gaussian p-values should be adequate when you have fairly large sample sizes in both groups, so that AVERAGES in both groups are ...
written 14.8 years ago by Sandrine Dudoit170
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Answer: A: SVM
... Hi Pam, The e1071 and other classification packages can be downloaded from CRAN http://cran.r-project.org/. Best, Sandrine On Tue, 17 Dec 2002, Pamela Wolfe wrote: > I have recently downloaded R and bioconductor. There were several Classification Packages listed in the handout that accompanie ...
written 14.9 years ago by Sandrine Dudoit170
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Answer: A: Swirl Data
... Hi Jason, Use <- instead of <-- for the assignment operator. Sandrine On Fri, 6 Dec 2002, Jason Skelton wrote: > > Hi > I'm having difficulty with accessing the swirl(zebrafish) data > from the document about Bioconductor's marrayNorm package > (Dudoit, Yang Aug 2002) > I ...
written 15.0 years ago by Sandrine Dudoit170
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Answer: A: Help with raw p-value
... Hi, The p-values in rawp0 are calculated based on a standard normal distribution, while those in t.test are calculated based on a t-distribution with df = 11.049. Try 2*(1-pt(abs(teststat[1]),df=11.049)) and you will get the same p-value as with t.test. Sandrine --------------------------------- ...
written 15.1 years ago by Sandrine Dudoit170
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Comment: C: problem in diagnostic plots?
... Yes, the problem is with how we set widths and heights in the layout function. Some combinations work on some computers but not others. We will try to sort this out. Sandrine On Wed, 31 Jul 2002, Joshua Betcher wrote: > The problem lies with the use of the "layout" function within maDiagnPlots ...
written 15.3 years ago by Sandrine Dudoit170

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