Showing : marray • reset
1
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2
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summarization for G4110B two colors agilent array: how to?
marray agilent twochannel normalization limma
updated 9.3 years ago by 50k • written 9.3 years ago by ▴ 240
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0
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1.4k
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How does one deal with spatial effects detected on single channel microarrays?
Microarray Normalization hu6800 affy gcrma marray nnNorm Harshlight Microarray hu6800
10.5 years ago Scott Robinson ▴ 130
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6
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1.6k
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How does one deal with spatial effects detected on single channel microarrays?
Microarray Normalization affy marray nnNorm Microarray Normalization affy marray nnNorm
updated 10.7 years ago by ★ 3.9k • written 10.7 years ago by ★ 13k
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0
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950
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Package/Function for Single Channel Microarray Spatial Normalization?
marray OLIN marray OLIN
10.7 years ago Guest User ★ 13k
0
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1
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1.8k
views
How to subtract the background from foreground values in GenePix files
Normalization limma marray Normalization limma marray
updated 10.7 years ago by 65k • written 10.8 years ago by ★ 13k
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3
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1.3k
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Normalize background on marray Agilent object
Normalization limma PROcess marray Normalization limma PROcess marray
updated 10.8 years ago by 50k • written 10.8 years ago by ▴ 50
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3
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1.5k
views
Normalize background on marray Agilent object
marray marray
10.9 years ago Guillermo Marco Puche ▴ 50
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0
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1.0k
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Agilent Dual channel array input & marray
marray marray
10.9 years ago Guillermo Marco Puche ▴ 50
0
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1
reply
1.2k
views
Unexpected output from Limma background subtraction & Normalization
Microarray Normalization limma marray puma Microarray Normalization limma marray puma
updated 3.2 years ago by 50k • written 11.0 years ago by ▴ 20
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1
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1.2k
views
Unexpected Results from Limma background subtraction & marray normalizatoin
Microarray Normalization limma marray Microarray Normalization limma marray
updated 3.2 years ago by 50k • written 11.0 years ago by ▴ 20
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0
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902
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NAs introduced by marrayNorm after background subtraction with Limma
Normalization probe limma marray Normalization probe limma marray
11.0 years ago Guest User ★ 13k
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0
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1.3k
views
normalizing two-color Agilent data from GEO...
marray marray
11.6 years ago Alan Derr ▴ 50
0
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1
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2.0k
views
Error by using gpr data with marray
limma marray ArrayExpress limma marray ArrayExpress
updated 12.1 years ago by ★ 13k • written 12.1 years ago by ★ 13k
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0
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1.0k
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Error with read.SMD() of marray
marray marray
12.5 years ago Guest User ★ 13k
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0
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932
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load single-channel microarray
marray marray
12.6 years ago Paz Tapia Ramirez ▴ 150
0
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2
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1.1k
views
M values; and dist functions
marray marray
updated 13.0 years ago by ★ 13k • written 13.0 years ago by ▴ 560
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2
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1.4k
views
gcrma - u133aaofav2probe error
Microarray gcrma marray Microarray gcrma marray
updated 13.1 years ago by 65k • written 13.1 years ago by ▴ 10
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2
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6.2k
views
Error in Heatmap: Could not find function "heatmap.2"
PROcess marray PROcess marray
updated 13.8 years ago by ▴ 830 • written 13.8 years ago by ▴ 40
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0
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870
views
maPalette() and the number of colors returned (bug?)
marray marray
13.9 years ago Ali Tofigh ▴ 30
0
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1
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1.1k
views
Could I use "genefilter" package for MArray data ?
genefilter limma marray genefilter limma marray
updated 14.0 years ago by ★ 13k • written 14.0 years ago by ▴ 230
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0
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852
views
MArray into data.frame for SPIA package
limma marray SPIA limma marray SPIA
14.1 years ago Gordon Smyth 50k
0
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11
replies
1.9k
views
Issue with limma and normalization of Agilent data generated with a 20-bit scan
Normalization limma marray Normalization limma marray
updated 14.1 years ago by 50k • written 14.1 years ago by ▴ 130
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1
reply
1.4k
views
Bug in vsn2
limma marray limma marray
updated 14.8 years ago by ★ 13k • written 14.8 years ago by ▴ 50
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1
reply
1.0k
views
Summarization of cDNA microarray data
marray marray
updated 15.1 years ago by 21k • written 15.1 years ago by ▴ 10
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1
reply
1.1k
views
Agilent miRNA
miRNA marray miRNA marray
updated 15.1 years ago by ▴ 40 • written 15.1 years ago by ▴ 200
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1
reply
1.1k
views
problems with marray and gpr files
marray marray
updated 15.3 years ago by 25k • written 15.3 years ago by ▴ 40
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0
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866
views
Moe430A and Moe430B join
moe430a moe430b mouse4302 gcrma marray moe430a moe430b mouse4302 gcrma marray
15.8 years ago Matyas Flemr ▴ 10
0
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6
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1.7k
views
limma and marray data import problem
Microarray Normalization limma PROcess marray Microarray Normalization limma PROcess
updated 15.9 years ago by 50k • written 15.9 years ago by ▴ 90
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2
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1.3k
views
Fwd: Question about normalizing one color Agilent array using loess
Microarray Genetics Normalization limma marray Microarray Genetics Normalization limma
updated 16.0 years ago by ★ 13k • written 16.0 years ago by ▴ 30
0
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1
reply
943
views
Input to vsn or limma of genepix file missing 635 columns
Annotation Normalization Biobase affy vsn limma marray convert Annotation Normalization
updated 16.0 years ago by ▴ 30 • written 16.0 years ago by 50k
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1
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1.5k
views
How to read a data.frame into limma or marray
Microarray Normalization limma marray Microarray Normalization limma marray
updated 16.4 years ago by ▴ 450 • written 16.4 years ago by ▴ 160
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1
reply
535
views
One directional spatial normalisation for microarray data
marray marray
updated 16.4 years ago by ★ 2.4k • written 16.4 years ago by ★ 3.4k
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3
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1.4k
views
tweaks for the heatmap ()?
Clustering marray Clustering marray
updated 16.5 years ago by ▴ 510 • written 16.5 years ago by ▴ 270
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4
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1.3k
views
Agilent CGH data
CGH arrayQuality marray CGH arrayQuality marray
updated 16.6 years ago by 21k • written 16.6 years ago by ▴ 230
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1
reply
1.1k
views
DNAcopy package, craeting CNA object
CGH marray DNAcopy CGH marray DNAcopy
updated 16.6 years ago by 21k • written 16.6 years ago by ▴ 230
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1
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1.0k
views
creating a copy number array data object in DNA copy
GO marray GO marray
updated 16.6 years ago by 65k • written 16.6 years ago by ▴ 230
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8
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3.2k
views
Reading Agilent files using read.maimages
Survival DynDoc genefilter tkWidgets affy vsn marray convert ArrayExpress Survival affy
updated 16.7 years ago by ▴ 20 • written 16.7 years ago by ▴ 100
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1
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3.2k
views
RE : create an new AnnotatedDataFrame
Annotation Survival Yeast Biobase genefilter tkWidgets marray convert arrayMagic affyio
updated 16.7 years ago by 25k • written 16.7 years ago by ▴ 30
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1
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1.6k
views
create an new AnnotatedDataFrame
Survival Yeast Biobase genefilter tkWidgets marray convert arrayMagic affyio Survival
updated 16.7 years ago by 25k • written 16.7 years ago by ▴ 30
0
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2
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1.2k
views
Error with arrayQuality
Microarray Cancer hexbin limma marray convert Microarray Cancer hexbin limma marray
updated 16.8 years ago by ★ 7.4k • written 16.8 years ago by ▴ 50
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1
reply
1.1k
views
marray layout
Microarray marray Microarray marray
updated 16.8 years ago by ▴ 130 • written 16.8 years ago by ▴ 40
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0
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903
views
tcl/tk dependency of biocLite
Genetics Cancer tkWidgets widgetTools marray Genetics Cancer tkWidgets widgetTools marray
17.0 years ago grischa tödt ▴ 30
0
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1
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1.2k
views
tcl/tk and biocLite
Genetics Cancer tkWidgets widgetTools marray Genetics Cancer tkWidgets widgetTools marray
updated 17.0 years ago by ★ 7.4k • written 17.0 years ago by ▴ 30
0
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0
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906
views
marray and limma error with lmFit
Microarray limma marray Microarray limma marray
17.0 years ago Gordon Smyth 50k
0
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0
replies
1.1k
views
marray and limma error with lmFit
Microarray Biobase DynDoc widgetTools limma arrayQuality marray convert Microarray DynDoc
17.0 years ago Paquet, Agnes ▴ 500
0
votes
2
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1.5k
views
marray: problems loading genepix-files
marray marray
updated 17.1 years ago by ▴ 130 • written 17.1 years ago by ▴ 310
0
votes
1
reply
1.1k
views
Help with GenePix files
Normalization marray GLAD Normalization marray GLAD
updated 17.1 years ago by ★ 7.4k • written 17.1 years ago by ▴ 310
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0
replies
1.4k
views
marray and limma error with lmFit
limma marray limma marray
17.1 years ago Gordon Smyth 50k
0
votes
0
replies
977
views
normalizeBetweenArrays gives an error
Normalization marray convert Normalization marray convert
17.5 years ago Gordon Smyth 50k
0
votes
0
replies
958
views
problems reading Illumina files using BeadExplorer
affy widgetTools limma marray convert affyio BeadExplorer affy widgetTools limma marray
17.5 years ago Vitalina Komashko ▴ 10
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Answer: PCA plot suggestions by Michael Love 41k
For help with interpretation and design of analysis, I recommend working with a local statistician. Due to time restrictions, I can only…
Comment: DESeq2 Error in `.rowNamesDF<-`(x, value = value): Invalid 'row.names' length by ussarizona ▴ 10
Hi Michael, Yes, I could figure it out what does the error mean. In my matrix I had the first colum GeneID while in my condition I only h…
Answer: Deseq2. decontXcounts not integers. Useful alternative? by Michael Love 41k
Another option would be to put the per sample estimated contamination in the design. This is for example how RUV etc help remove spurious D…
Answer: ATACseq merge peaks by ATpoint ★ 4.0k
That depends on your analysis. Typically, for differential analysis (and convenience) you would produce a single set of peaks (e.g. by merg…
Comment: Deseq2. decontXcounts not integers. Useful alternative? by camp ▴ 10
Yes, @atpoint is correct. decontX decontaminated counts are not integers due to the way the variation inference algorithm works, but you ca…
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Comment: DESeq2 Error in `.rowNamesDF<-`(x, value = value): Invalid 'row.names' length
Comment: Deseq2. decontXcounts not integers. Useful alternative?
Comment: Opposite sign of LFC in count plots of DEGs (DESeq2)
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Comment: biomaRt : No lock file for BiocFileCache
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