User: Celine Carret

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Celine Carret220
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c**@sanger.ac.uk

Posts by Celine Carret

<prev • 22 results • page 1 of 3 • next >
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Answer: A: Support vector model?
... Dear Zeljko, Thank you for answering! So 1st of all, I'm sorry I wasn't clear enough, I have 57 different measurable quantities (columns) for set 1 (parasite); 18 for the negative control etc, so in fact there is a variable number of columns for each set, but also variable number of rows as each me ...
written 10.8 years ago by Celine Carret220
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Support vector model?
... Dear All, Apologies for sending this email to both list, but at this point I'm not sure which one could help me the most. I have 4 sets of data, 1 test and 3 different sets of controls. The measurements are binary, with a matrix of 0 and 1 I'm measuring across time (rows, ~815) the behaviour of o ...
written 10.8 years ago by Celine Carret220
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Answer: A: Extracting genes within venn diagram
... Thank you all for your advices and explanations It's clear now. Best wishes celine -----Original Message----- From: Jenny Drnevich [mailto:drnevich@illinois.edu] Sent: 06 November 2008 16:01 To: James W. MacDonald; Celine Carret Cc: bioconductor at stat.math.ethz.ch Subject: Re: [BioC] Extracting g ...
written 10.9 years ago by Celine Carret220
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Extracting genes within venn diagram
... Hi all, I have a venn diagram obtained from Limma using decideTests() default and I would like to extract the gene lists specific for each contrasts. Here is what I did: >matrix <- read.csv("cells-HumanDB.csv") ##columns 1 and 2 are gene names and uniprot labels, numerical values start on c ...
limma affycoretools written 10.9 years ago by Celine Carret220
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KEGG2heatmap genesymbols as row names?
... Dear BioC users, I want to plot the genes in my result-matrix that have an annotation in a given KEGG pathway as a heatmap. For that, I use the KEGG2heatmap function from the annotate package (see code below). I was wondering if anyone has an idea about how to change the default affy-IDs as row ...
annotation go annotate affy written 11.2 years ago by Celine Carret220 • updated 11.2 years ago by Saurin D. Jani360
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Answer: A: Question - AffylmGUI
... Dear Marcos, You should look at the limma manual. AffylmGUI uses limma in the bacground Bets wishes celine -----Original Message----- From: bioconductor-bounces@stat.math.ethz.ch [mailto:bioconductor- bounces@stat.math.ethz.ch] On Behalf Of Marcos Pinho Sent: 18 January 2008 14:01 To: bioconductor ...
written 11.7 years ago by Celine Carret220
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Answer: A: simpleaffy
... Hello Patricia, You certainly can have a look at ?pairwise.filter in your R session to see what options are available for this function. That will show what each parameter means. Thus you'll see that the criteria you chose are very stringeant! You certainly can relax the stringency on the fc for ex ...
written 11.7 years ago by Celine Carret220
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Answer: A: CDF file
... Hi, by googling the array name, I found this: http://inn.weizmann.ac.il/bioconductor/packages/1.9/data/annotation/ht ml /hsex10stv2hsug.html Isn't it your answer? Best wishes Celine -----Original Message----- From: bioconductor-bounces@stat.math.ethz.ch [mailto:bioconductor-bounces at stat.math.e ...
written 11.8 years ago by Celine Carret220
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Answer: A: GO classification
... Hi, you should have a look at this: http://faculty.ucr.edu/~tgirke/Documents/R_BioCond/My_R_Scripts/goSlim .t xt I found it very clear, and useful, and if you don't work on human- chips you can customise the script easily. Best regards Celine -----Original Message----- From: bioconductor-bounces@ ...
written 11.9 years ago by Celine Carret220
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Comment: C: [SAGEnhaft] This library does all post analysis on SAGE or is need another softw
... Thanks Sean, unfortunately, it doesn't work, it says > exprs(eset)[as.character(list[,1]),] Error: subscript out of bounds as for the affy Ids, it's fine because those IDs replace the affy ID in our custom array, so these are present in the eset as stated. any other idea? best wishes, Celine ...
written 13.0 years ago by Celine Carret220

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Popular Question 10.8 years ago, created a question with more than 1,000 views. For Extracting genes within venn diagram

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