User: Noemi Andor

gravatar for Noemi Andor
Noemi Andor100
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100
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New User
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Last seen:
8 years, 11 months ago
Joined:
9 years, 4 months ago
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n**********@campus.lmu.de

Posts by Noemi Andor

<prev • 10 results • page 1 of 1 • next >
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gene-locations
... Hello, I have a question regarding the mapping of genes to their chromosomal locations. I'm using the expression data from affymetrix with probes attributed to the Hthgu133ahsrefseq - CDF files (http://brainarray.mbni.med.umich .edu/Brainarray/Database/CustomCDF/13.0.0/refseq.asp). On the other han ...
cdf written 9.0 years ago by Noemi Andor100 • updated 9.0 years ago by James W. MacDonald51k
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memory limit
... Hi, I have a problem with the R memory limits. First, I use R on a 64 bit system under windows 7. I start R with the following options: --min-vsize=10M --max-vsize=3G --min-nsize=500k --max-nsize=900M Yet somewhere within the program I use, I get the error report: "can not allocate vector of size ...
cgh trigger written 9.0 years ago by Noemi Andor100 • updated 9.0 years ago by Steve Lianoglou12k
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fisher-test
... Hello, I have a question regarding fiher-test & differential gene expression. I usually use ttest to see which genes are differential expressed between two sample-types. I thought of using fisher test for the first time, to see if results are comparable, yet I'm not shure if I applyed it correc ...
written 9.2 years ago by Noemi Andor100
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methylumiSet - normalization
... Hi everybody, I have some Illumina methylation data which I try to normalize using the Methylumi package. I've constructed an MethyLumiSet taking as example the mldat-object from the vignette, i.e. I build the components of my methylumiset-object analogue to the mldat-object. Yet when I try to norm ...
methylumi written 9.3 years ago by Noemi Andor100
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methylumi
... Hello everybody, I'm currently working with Methylation data. Three data types: IlluminaDNAMethylation_OMA003_CPI_CPI, IlluminaDNAMethylation_OMA002_CPI_CPI both from Illumina Golden Gate BeadArray platform and Illumina Infinium Human DNA Methylation 27 platform After several trials, I finally ...
probe beadarray written 9.3 years ago by Noemi Andor100 • updated 9.3 years ago by Sean Davis21k
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limma Agilent Normalization
... Hi, I'm working with the Agilent CGH 244A Platform, and I normalized the data using the command: MA <- normalizeWithinArrays(Agilent.RG, method="loess") Than I made MA plots: plotMA3by2(Agilent.RG) vs. plotMA3by2(MA ) Yet I get the same plots, i.e. normalization had no effect upon the d ...
normalization cgh written 9.3 years ago by Noemi Andor100 • updated 9.3 years ago by Sean Davis21k
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Answer: A: RLE Nose t2
... James W. MacDonald writes: > > Hi Noemi, > > Noemi Andor wrote: > > Hi, > > > > I have used the RMA-Express upon my .CEL files and after that the > > NOSE RLE T2 test to filter out bad quality arrays. Yet I have so many > > cel-files that I can't allocate ...
written 9.3 years ago by Noemi Andor100
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DNA-Methylation, CopyNumber Results
... Hi, I need to parse some raw Methylation data from Illumina (Infinium) and some copy number results (CGH, high amount of data). I would be grateful for any useful information like which bioconducter packages to use, alternative tools, normalization. thank's in advance, Noemi ...
normalization written 9.3 years ago by Noemi Andor100 • updated 9.3 years ago by Chao-Jen Wong580
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RLE Nose t2
... Hi, I have used the RMA-Express upon my .CEL files and after that the NOSE RLE T2 test to filter out bad quality arrays. Yet I have so many cel- files that I can't allocate them to their t2-value (they can't be distiguished in the picture). Instead I can print the RLE and NOSE statistics separatly ...
written 9.3 years ago by Noemi Andor100
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affybatch object too big
... Hi, I have a problem with the loading of an affybatch object from cel- files. I have multiple cel files and want to analyze them all together, yet the amount of data is to big to be loaded. I am interested only in a subset of genes within those cel-files. So I could load the cel-files into 3 or 4 a ...
affy written 9.4 years ago by Noemi Andor100 • updated 9.4 years ago by Noe Andor70

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