User: SSK

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SSK10
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10
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New User
Location:
United Kingdom
Last seen:
4 years, 5 months ago
Joined:
4 years, 6 months ago
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Posts by SSK

<prev • 9 results • page 1 of 1 • next >
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Answer: A: Single channel v two channel normalization
... Thank you for your answers. I am a bit confused. I am trying to do something similar to this paper: http://www.ncbi.nlm.nih.gov/pubmed/8944026 It seems as though they just use a red/green ratio and compare this ratio across a subset of genes. Does this make sense? ...
written 4.5 years ago by SSK10 • updated 4.5 years ago by Gordon Smyth39k
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Single channel v two channel normalization
... Hi,  I am using a two color microarray. After normalization I get values for M and A but I am looking for a single normalized expression value for each gene that you find with single color microarrays. Does anyone know how I can do so? Thank you! ...
microarray normalization limma written 4.5 years ago by SSK10
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Question about read.maimages
... Hi, I am interested in analysis of E-GEOD-37442. I have tried reading the data using: #load package library(limma) #Change directory setwd('/Users/E-GEOD-37442/') #Read the sample and data relationship format (SDRF) file SDRF <- read.delim("E-GEOD-37442.sdrf.txt",check.names=FALSE,stringsAsFa ...
limma differential gene expression read.maimages written 4.5 years ago by SSK10 • updated 4.5 years ago by Gordon Smyth39k
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Answer: A: Differential Expression of c.diff. microarray
...   I have read the manual for Limma but I am not sure of the specifications for E-GEOD-37442. I have the following line of code: SDRF <- read.delim("E-GEOD-37442.sdrf.txt",check.names=FALSE,stringsAsFactors=FALSE) but i am not sure what are the specifications for read.maimages? I have this line ...
written 4.5 years ago by SSK10
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Differential Expression of c.diff. microarray
... Hello, I am interested in determining the differential expression in E-GEOD-37442. Does anyone know of some code that I can adapt to the analysis of this array. In the array description it says A-GEOD-15470 - Agilent-024835 CDv2_0_1 [ProbeName version]  Thank you so much! ...
arrayexpress differential expression written 4.5 years ago by SSK10
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ArrayExpress (finding differential expression using bioconductor+C)
... Hello, I am trying to analyze microarray data (E-BUGS-55 and E-BUGS-56) and determine differential expression. I am not sure if you could guide me to some code that can be used for this purpose. The array design information can be found at: http://www.ebi.ac.uk/arrayexpress/arrays/A-BUGS-20/ I e ...
arrayexpress differential expression written 4.6 years ago by SSK10
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Comment: C: Help with microarray analysis (forming cdf files)
... Thank you so so much for helping me out! I am completely new to this area and I truly appreciate your help! I will make a new post! ...
written 4.6 years ago by SSK10
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Comment: C: Help with microarray analysis (forming cdf files)
... Thank you so so much for helping me out! I am completely new to this area and I truly appreciate your help! I will make a new post! ...
written 4.6 years ago by SSK10
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Help with microarray analysis (forming cdf files)
... Hello, I am trying to analyze microarray data (E-BUGS-55 and E-BUGS-56) and I am not sure if you could guide me to some code that can be used to analyze this type of affymetrix arrays. I am currently running into trouble as I need to construct cdf files but I am not sure how I can do so. I would r ...
microarray affy makecdfenv written 4.6 years ago by SSK10 • updated 4.6 years ago by James W. MacDonald51k

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