User: Alyaa Mahmoud

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Alyaa Mahmoud440
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Posts by Alyaa Mahmoud

<prev • 44 results • page 2 of 5 • next >
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Answer: A: Merging two data frame
... ##provided both dataframes have the same number/names of rows in a different order; df1 = df1[rownames(df1)%in%rownames(df2), ] df1 = df[rownames(df2), ] merged_df = cbind (df1, df2) ##if dataframes have different number of rows merged_df = merge (df1, df2, by = 0, all = TRUE) On Wed, Jul 3, 2013 ...
written 4.4 years ago by Alyaa Mahmoud440
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add txt labels to points in plot from splom
... Hi All I would like add txt label to points in scatter plot generated using splom. How do I do this ? I checkd textxy() from {calibrate} package but I am not sure how to integrate it with splom function. Thank you very much for your help yours, Alyaa -- Alyaa Mahmoud "Love all, trust a few, do ...
written 4.6 years ago by Alyaa Mahmoud440
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NCI 60 gene expression status
... Dear group Is there a way I can transform any of the three formats ( http://svitsrv25.epfl.ch/R-doc/library/made4/html/NCI60.html) of the expression data of NCI60 cancer cell lines into gene expression status, i.e. I want to identify which genes are up/down/constitutive ? or can we use z-scores t ...
cancer written 4.7 years ago by Alyaa Mahmoud440
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Comment: C: getGEO error
... Dear Sean It worked perfectly fine. Thank you very much for all your efforts. Kindest regards, Alyaa On Sat, Jan 26, 2013 at 3:45 PM, Sean Davis wrote: > On Sat, Jan 26, 2013 at 4:35 AM, Alyaa Mahmoud > wrote: > > Thanks a lot for the replies. > > > > I updated to "R v ...
written 4.8 years ago by Alyaa Mahmoud440
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Comment: C: getGEO error
... Thanks a lot for the replies. I updated to "R version 2.15.0 (2012-03-30" to but I still get the same error msg; test = getGEO ("GSE17221") Found 1 file(s) GSE17221_series_matrix.txt.gz Using locally cached version: /tmp/RtmpBQOrpt/GSE17221_series_matrix.txt.gz Using locally cached version of GPL ...
written 4.8 years ago by Alyaa Mahmoud440
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getGEO error
... Dear Group I am trying to download some datasets from GEO using package GEOquery. It worked fine for most of the datasets except for a couple of them, I get the following error: * * Error in read.table(file = file, header = header, sep = sep, quote = quote, : no lines available in input * * This ...
geoquery written 4.8 years ago by Alyaa Mahmoud440 • updated 4.8 years ago by Sean Davis21k
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lowest common ancestor
... Hi group Is there a way I can find the lowest common ancestor of a set of nodes for a dendrogram created in R ? Thanks a lot Alyaa Computational Biologist Biology Department American University in Cairo, Egypt alya.mahmoud@aucegypt.edu -- Alyaa Mahmoud "Love all, trust a few, do wrong to none" ...
written 4.9 years ago by Alyaa Mahmoud440
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Comment: C: correlation between two pathways' genes
... Thanks a lot Paul for the suggestion. On Sun, Dec 16, 2012 at 2:50 PM, Paul Geeleher wrote: > I think you'd first have to summarize the "expression level" of each > pathway somehow, the easiest thing to do is probably to summarize them > by their median. Then calculate the corrleation be ...
written 4.9 years ago by Alyaa Mahmoud440
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correlation between two pathways' genes
... Dear Group I would like to find if the genes of two different pathways are correlated or anti-correlated or no correlation at all. The number of genes in the two pathways are different, that's why a simple scatter plot will not be effective. Is there a simple way I can do this ? Thank you very muc ...
pathways written 4.9 years ago by Alyaa Mahmoud440 • updated 4.9 years ago by Paul Geeleher1.3k
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Answer: A: identifying sets of correlated genes
... On Mon, Nov 26, 2012 at 1:51 PM, Robert Castelo wrote: > hi, > > few more questions, > > how many samples do you have? > 257 > > what is the structure of these data: are all samples from the same > experimental condition? > yes > > do you suspect the presence o ...
written 5.0 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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