User: Alyaa Mahmoud

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Alyaa Mahmoud440
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Posts by Alyaa Mahmoud

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Answer: A: mapping probe information for agilent single channel array
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written 3.6 years ago by Alyaa Mahmoud440
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mapping probe information for agilent single channel array
... Good Morning I am trying to analyze a single channel agilent dataset. But I cannot seem to find how to retrieve probe info from pData object, i.e. the matrix I end up with contains no probe IDs. Please advise as I am really stuck at this point. gset <- getGEO("GSE48113", GSEMatrix =TRUE) if (le ...
probe written 3.6 years ago by Alyaa Mahmoud440
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Comment: C: ggplot2 error
... Thanks a lot Steve. resolved using is.finite() On Wed, Jan 29, 2014 at 8:12 PM, Steve Lianoglou wrote: > Hi, > > On Wed, Jan 29, 2014 at 12:07 AM, Alyaa Mahmoud > wrote: > > I also get this error when I simply use plot: > > > > plot (df[,1], df[,2]) > > Error ...
written 3.8 years ago by Alyaa Mahmoud440
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Answer: A: ggplot2 error
... I also get this error when I simply use plot: plot (df[,1], df[,2]) Error in plot.window(...) : infinite axis extents [GEPretty(-inf,inf,5)] On Wed, Jan 29, 2014 at 10:55 AM, Alyaa Mahmoud wrote: > Dear Group > > I am trying to plot a simple a scatter plot using ggplot, I removed all NA ...
written 3.8 years ago by Alyaa Mahmoud440
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ggplot2 error
... Dear Group I am trying to plot a simple a scatter plot using ggplot, I removed all NA and all rows with zero variance as well but I am still getting the error below: ggplot(df aes(x=df[,1], y=df[,2])) + + geom_point(shape=1) + # Use hollow circles + geom_smooth(method=lm) + # Add linear r ...
regression written 3.8 years ago by Alyaa Mahmoud440
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clustering with already generated similarity matrix
... Dear group I have a pre-computed similarity matrix (mutual informtion), is there a way I can plot a heatmap or dendrogram directly, i.e. with the similarity matrix as input. Thank you Alyaa -- Alyaa Mahmoud "Love all, trust a few, do wrong to none"- Shakespeare [[alternative HTML version ...
written 4.0 years ago by Alyaa Mahmoud440
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Comment: C: Comparing microarray data from different platforms
... Hi check fRMA package (frozen RMA) and relevant publication http://www.bioconductor.org/packages/2.12/bioc/html/frma.html good luck Alyaa On Thu, Oct 3, 2013 at 4:03 PM, Sean Davis wrote: > On Thu, Oct 3, 2013 at 8:55 AM, Ahmet Sinan Yavuz > wrote: > > Hello, > > > > W ...
written 4.1 years ago by Alyaa Mahmoud440
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Answer: A: cycle package question
... Great, thanks a lot for your reply On Tuesday, September 17, 2013, Matthias Futschik wrote: > Hi Alyaa, > as it is, the fdrfourier function accepts only expression set objects, > but with the conversion (ExpressionSet(matrix)), which you used, you > should be fine > also in cases wh ...
written 4.2 years ago by Alyaa Mahmoud440
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Comment: C: cycle package question
... its from the "cycle" package the function only accepts expression set object, so I originally wanted to ask if its possible to change that so far, I have just converted the matrix into an expression set object (ExpressionSet(matrix)) but my original question was if its possible to pass a matrix d ...
written 4.2 years ago by Alyaa Mahmoud440
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cycle package question
... Dear BioC group Is there a way we can apply the function fdrfourier to an expression matrix directly and not necessarily an expressionSet object ?? Please advise Looking forward to your reply Thanks a lot yours, Alyaa Mahmoud -- Alyaa Mahmoud "Love all, trust a few, do wrong to none"- Shakespe ...
written 4.2 years ago by Alyaa Mahmoud440

Latest awards to Alyaa Mahmoud

Popular Question 9 months ago, created a question with more than 1,000 views. For error in hclust function
Popular Question 3.6 years ago, created a question with more than 1,000 views. For ggplot2 error
Popular Question 3.6 years ago, created a question with more than 1,000 views. For ggplot2 error
Great Question 3.6 years ago, created a question with more than 5,000 views. For error in hclust function
Great Question 3.6 years ago, created a question with more than 5,000 views. For ggplot2 error

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