User: Andreia Fonseca

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Posts by Andreia Fonseca

<prev • 83 results • page 2 of 9 • next >
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analysis of HuGene2.0-st array affymetrix -aroma package
... Dear all, I am analysing HuGene2.0-st array affymetrix using aroma and limma package. I have 2 treatments and 3 arrays per condition. I have getting 11 genes that are differentially expressed, but these loose significance after applying fdr correction. I want to apply a filter out genes with simila ...
genefilter written 6.7 years ago by Andreia Fonseca810
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Comment: C: xps- not being able to load it
... Dear Christian, The version of Mac is 10.6.8 and the root is version 5.34.05. I just have one more question before I start following your instructions. How can I edit the file .bashrc? it is read only, and I have tried to edit it using sudo and I couldn't too. Can you confirm me that this file is t ...
written 6.7 years ago by Andreia Fonseca810
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Comment: C: xps- not being able to load it
... Dear Christian, I have downloaded the advised version http://root.cern.ch/drupal/content/production-version-534 it is saved in my Downloads directory then I have unpacked using the following command: $gzip -dc root_.source.tar.gz | tar -xf - after unpacking I went to the directory root and did ...
written 6.7 years ago by Andreia Fonseca810
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Comment: C: xps- not being able to load it
... Dear Steve and Christian, I have installed root, its in the root, so when I invoke root in a terminal it starts but I am getting the same error message in R. When I try to make in the terminal . lib/thisroot.sh is doesn't find the file. I am desperate, I have try to install root in different way ...
written 6.7 years ago by Andreia Fonseca810
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Comment: C: xps- not being able to load it
... dear Christian, can you explain me how to set the environment variables? I found the file .bashrc, I understand that I need to add the path to this file. Is it the /usr/local? Is it like this? $PATH=/usr/local ? Thanks for the help On Tue, Mar 26, 2013 at 6:43 PM, cstrato wrote: > Dear Andr ...
written 6.7 years ago by Andreia Fonseca810
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xps- not being able to load it
... Dear all, I am trying to install xps and I am getting the following error: library("xps") Error in dyn.load(file, DLLpath = DLLpath, ...) : unable to load shared object '/Library/Frameworks/R.framework/Versions/2.15/Resources/library/xps/l ibs/i386/xps.so': dlopen(/Library/Frameworks/R.framewor ...
xps written 6.7 years ago by Andreia Fonseca810 • updated 6.7 years ago by cstrato3.9k
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Comment: C: error in DESeq : analysis without replicates
... Dear Wolfgang, thanks for the reply. In the meanwhile I solved the problem by eliminating the transcripts that had <2000 reads in one of the conditions. Then it worked without any problems. Kind regards, Andreia PS: why would I blame the package? I must say that we have been having many repro ...
written 7.2 years ago by Andreia Fonseca810
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error in DESeq : analysis without replicates
... Dear list, I am trying analysis without replicates for a large data set of small transcripts and I am getting the following error Error: condB %in% levels(conditions(cds)) is not TRUE the code that I have used is myvars_2<-c("transcript","T1","T2") first_T1_2<-first[myvars_2] countsTable_T ...
written 7.2 years ago by Andreia Fonseca810 • updated 7.2 years ago by Wolfgang Huber13k
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Comment: C: fitting growth curve
... Dear Alessandro, I have tried your code and it works but it is making a fit for each replicate. I aim to make a fit for each cell type. Is this possible with your package? Kind regards, Andreia On Wed, May 16, 2012 at 2:24 PM, alessandro brozzi < alessandro.brozzi@gmail.com> wrote: > y ...
written 7.5 years ago by Andreia Fonseca810
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Comment: C: fitting growth curve
... Dear Alessandro thanks for the quick reply! :) after making the fit can I make an anova to compare the two fits? Thanks kind regards, Andreia On Wed, May 16, 2012 at 1:44 PM, alessandro brozzi < alessandro.brozzi@gmail.com> wrote: > hi Andreia, > > "technically" the answer is t ...
written 7.5 years ago by Andreia Fonseca810

Latest awards to Andreia Fonseca

Popular Question 2.8 years ago, created a question with more than 1,000 views. For problems in installing biomart
Popular Question 2.8 years ago, created a question with more than 1,000 views. For htseq and dexseq
Popular Question 2.8 years ago, created a question with more than 1,000 views. For fitting growth curve
Popular Question 2.8 years ago, created a question with more than 1,000 views. For getBM
Popular Question 2.8 years ago, created a question with more than 1,000 views. For installation of org.Hs.eg.db

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