Showing : marray • reset
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Reading in raw ImaGene files uisng marray
Normalization limma marray Normalization limma marray
19.4 years ago Gordon Smyth 53k
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3
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1.7k
views
maQualityPlots on Mac
GUI arrayQuality marray GUI arrayQuality marray
updated 19.4 years ago by ▴ 300 • written 19.4 years ago by 16k
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Reading in raw ImaGene files uisng marray
Normalization limma marray Normalization limma marray
19.4 years ago Noah Cohen ▴ 50
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4
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1.7k
views
limma: read.maimages possibility to warn the user?
limma marray limma marray
updated 19.5 years ago by ▴ 250 • written 19.5 years ago by 53k
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944
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marray: removing flagged spots from loess normalization
marray marray
19.6 years ago Oliver R. Homann ▴ 30
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905
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background correction in marray
Normalization limma marray Normalization limma marray
19.7 years ago Jacob Michaelson ▴ 320
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1.2k
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limma, marray and Agilent 44K
Normalization Biobase vsn limma marray Normalization Biobase vsn limma marray
19.7 years ago Nataliya Yeremenko ▴ 100
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1.1k
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Limma, marray and Agilent 44K
Normalization Biobase vsn limma marray convert Normalization Biobase vsn limma marray
19.7 years ago Nataliya Yeremenko ▴ 10
0
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2
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1.4k
views
merge SMD data from different print batch
Microarray limma marray Microarray limma marray
updated 19.8 years ago by ▴ 60 • written 19.8 years ago by ★ 1.8k
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5
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2.1k
views
getBM (biomaRt) sometimes returns NULL
Annotation limma marray convert biomaRt Annotation limma marray convert biomaRt
updated 19.8 years ago by ★ 13k • written 19.8 years ago by ▴ 250
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2
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1.1k
views
How to boxplot Print tip group intensities with limma, out from marray objects ?
marray marray
updated 19.8 years ago by ★ 2.2k • written 19.8 years ago by ▴ 540
0
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3
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1.8k
views
bugs in arrayQuality and marray
Normalization Biobase hexbin arrayQuality marray Normalization Biobase hexbin arrayQuality
20.1 years ago Paquet, Agnes ▴ 500
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2
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1.2k
views
bug in overview function of made4
Biobase affy marray convert made4 Biobase affy marray convert made4
updated 20.1 years ago by ▴ 510 • written 20.1 years ago by ★ 2.2k
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6
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2.0k
views
background correction with cDNA array data
marray marray
updated 20.2 years ago by ▴ 10 • written 20.2 years ago by ▴ 60
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0
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868
views
goHyperG generates GO links at arrays.ucsf.edu withwrong perl script,
GO marray GO marray
20.3 years ago Paquet, Agnes ▴ 500
0
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1
reply
1.7k
views
Bioconductor Digest, Vol 31, Issue 7
Microarray Annotation Cancer probe multtest affy limma marray Microarray Annotation affy
20.4 years ago Shruti Subramaniam ▴ 30
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4
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1.6k
views
Problems loading mraw
Microarray marray Microarray marray
updated 20.5 years ago by ▴ 500 • written 20.5 years ago by ▴ 460
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10
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3.9k
views
read.GenePix not opening connection
Microarray marray Microarray marray
updated 20.6 years ago by ▴ 20 • written 20.6 years ago by ▴ 460
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7
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2.1k
views
Agilent Arrays
affy limma marray affy limma marray
updated 20.6 years ago by ▴ 30 • written 20.6 years ago by ▴ 340
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1.2k
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Agilent Arrays
affy limma marray affy limma marray
20.6 years ago Gordon Smyth 53k
0
votes
0
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1.3k
views
differences or 1-channel (was Re: Agilent Arrays)
Normalization GO probe affy affydata vsn limma marray BEAT Normalization GO probe affy
20.6 years ago Naomi Altman ★ 6.0k
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1
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1.1k
views
error msg w/ read.marrayRaw() : "targets" matched by multiple actual arguments
marray marray
updated 20.6 years ago by ▴ 730 • written 20.6 years ago by ▴ 250
0
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2
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1.7k
views
Bioconductor Digest, Vol 28, Issue 23
Normalization probe affy affydata limma marray BEAT Normalization probe affy affydata
updated 20.6 years ago by ★ 13k • written 20.6 years ago by 53k
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0
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791
views
marray intensity normalization? dangerous waters
marray marray
20.6 years ago Simon Lin ▴ 210
0
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0
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859
views
marray intensity normalization?
Normalization limma marray convert Normalization limma marray convert
20.6 years ago Gordon Smyth 53k
0
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0
replies
876
views
marray intensity normalization?
marray convert marray convert
20.6 years ago Jacob Michaelson ▴ 320
0
votes
0
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944
views
Help on using read.Agilent from marray library
Microarray marray Microarray marray
20.7 years ago Archana Sharma-Oates ▴ 10
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5
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1.5k
views
marray, weights and normalizations..
marray marray
updated 20.8 years ago by 53k • written 20.8 years ago by ▴ 30
0
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1
reply
1.3k
views
MAGE-ML reading
RMAGEML PROcess marray SJava RMAGEML PROcess marray SJava
updated 20.8 years ago by 21k • written 20.8 years ago by 6.7k
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0
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849
views
A beginner's question about assigning values to marray slots
Microarray marray Microarray marray
20.8 years ago Zhang, Yuanji ▴ 10
0
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1
reply
883
views
Fwd: [marray] Importing SMD files into marray
Microarray marray Microarray marray
20.8 years ago Rene Nederhand ▴ 60
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4
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1.4k
views
marrayQuality & marray : empty ?
marray marray
updated 20.9 years ago by ▴ 500 • written 20.9 years ago by ▴ 30
0
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0
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984
views
questions about agilent 44k array
graph marray graph marray
20.9 years ago xuejun qin ▴ 10
0
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3
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1.7k
views
vsn in limma or marray/arrayMagic
Normalization vsn limma marray Normalization vsn limma marray
21.0 years ago A.E.Schiel@lumc.nl ▴ 100
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2
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1.2k
views
reading arrays image analysed with spot
marray marray
updated 21.0 years ago by ▴ 20 • written 21.0 years ago by ▴ 250
0
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1
reply
1.4k
views
Error message when running arrayQuality 1.0.9
arrayQuality marray arrayQuality marray
updated 21.0 years ago by ▴ 500 • written 21.0 years ago by ▴ 10
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1
reply
1.3k
views
reading Agilent data files
limma marray limma marray
updated 21.0 years ago by ▴ 250 • written 21.0 years ago by 21k
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0
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1.0k
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reading Agilent data files
marray marray
21.1 years ago Olivier BUHARD ▴ 20
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0
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969
views
problem for reading Agilent Human 44k data by marray package
marray marray
21.1 years ago Yanqin Yang ▴ 250
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1
reply
1.2k
views
problem with hexbin
hexbin marray hexbin marray
updated 21.1 years ago by ▴ 500 • written 21.1 years ago by ▴ 250
0
votes
1
reply
977
views
convert data object within Limma (.txt to RGlist)
limma marray convert limma marray convert
updated 21.2 years ago by ★ 3.4k • written 21.2 years ago by ▴ 100
0
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0
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791
views
function log.na() removed from package vsn >= 1.5.1
vsn marray vsn marray
21.2 years ago Wolfgang Huber ★ 13k
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1
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3.3k
views
error in Loess normalization
Normalization limma marray Normalization limma marray
updated 21.2 years ago by ▴ 920 • written 21.2 years ago by ▴ 50
0
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3
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1.6k
views
Install of 1.5 Packages fails
GO edd genefilter annaffy affyPLM marray GO edd genefilter annaffy affyPLM marray
updated 21.2 years ago by ★ 5.5k • written 21.2 years ago by ★ 1.7k
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2
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1.7k
views
gregmisc package-problems with BioC latest release?
Biobase annotate edd genefilter geneplotter ROC limma siggenes affyPLM marray Biobase
updated 21.2 years ago by ★ 7.4k • written 21.2 years ago by ▴ 130
0
votes
1
reply
1.4k
views
marray bug?
marray marray
updated 21.3 years ago by ▴ 920 • written 21.3 years ago by ▴ 30
0
votes
2
replies
1.3k
views
marrayLayout difficulties
PROcess marray PROcess marray
updated 21.3 years ago by ▴ 920 • written 21.3 years ago by ▴ 80
0
votes
9
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2.3k
views
RE: Advice on print-tip normalization
Cancer probe marray oligo Cancer probe marray oligo
updated 21.3 years ago by ▴ 50 • written 21.3 years ago by ▴ 70
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0
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899
views
Advice on print-tip normalization
probe marray oligo probe marray oligo
21.3 years ago Gene Cutler ▴ 50
0
votes
1
reply
977
views
Loading gal files with marray
marray marray
updated 21.4 years ago by ▴ 10 • written 21.4 years ago by ▴ 10
135 results • Page 2 of 3
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Answer: limpa analysis advice by Gordon Smyth 53k
It is actually very hard to estimate the DPC from observed data, because the curve is function of unobserved intensities rather than a func…
Answer: When to use edgeR or limma by Gordon Smyth 53k
The short answer is that we generally prefer edgeR for applications with lots of small counts and limma for complex designs with random eff…
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I updated the above answer today.
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I would use edgeR's quasi-likelihood model for any analysis with a smaller number of observations (like 3 vs 3 or similar), but if you have…
Answer: limpa-blank normalization and Spectronaut's PTM stoichiometry by Gordon Smyth 53k
The short answer is that limpa reads standard feature-level intensities from Spectronaut or other quantifications tools. limpa is designed …
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Answer: When to use edgeR or limma
Answer: When to use edgeR or limma
Answer: When to use edgeR or limma
Answer: When to use edgeR or limma
A: deseq2 - paired samples in 2 sequencing types with very different library sizes
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