Showing : ArrayExpress • reset
6
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5
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3.2k
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How to analyze correctly agilent two-colour microarray data from the ArrayExpress repository with the limma R package
agilent microarrays limma arrayexpress NChannelSet
updated 5.6 years ago by 50k • written 5.6 years ago by ▴ 830
4
votes
2
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1.3k
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TargetsFile. Where it is?
Limma ArrayExpress GEO
updated 3.1 years ago by 65k • written 3.1 years ago by • 0
4
votes
5
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2.0k
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time course microarray data ArrayExpress database
R GillespieColin ArrayExpress import TimeSeriesExperiment
updated 7 months ago by ▴ 40 • written 19 months ago by ▴ 20
4
votes
1
reply
1.6k
views
Mismatched ArrayExpress microarray annotation package
arrayexpress ArrayExpress hthgu133a.db
6.9 years ago sandmann.t ▴ 70
3
votes
6
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2.8k
views
function getAE from ArrayExpress needs update because EBI has switched to https
arrayexpress xml rcurl http EBI
updated 6.6 years ago by ★ 13k • written 6.6 years ago by ▴ 610
3
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4
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3.0k
views
lm.fit incompatible dimensions
oligo arrayexpress limma
updated 4.2 years ago by • 0 • written 5.3 years ago by • 0
3
votes
2
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1.2k
views
NChannelSet --> eSet/expressionSet ? How to transform?
ExpressionData ArrayExpress
updated 3.1 years ago by 50k • written 3.1 years ago by • 0
2
votes
2
replies
811
views
Simple queryAE command returning "Error: 1: Document is empty"
queryAE ArrayExpress
18 months ago alekeuro ▴ 10
2
votes
1
reply
1.2k
views
Output of ArrayExpress() function
oligo oligoclasses arrayexpress
updated 7.3 years ago by 65k • written 7.3 years ago by • 0
2
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3
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2.0k
views
ArrayExpress unable to find raw data: "Experiment has no raw files available"
arrayexpress
updated 7.5 years ago by ▴ 20 • written 7.5 years ago by ▴ 180
2
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3
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1.6k
views
Could not access the Bioconductor repository
bioconductor proxy arrayexpress
updated 5.3 years ago by 65k • written 5.3 years ago by • 0
2
votes
0
replies
1.2k
views
Fix for queryAE() in the ArrayExpress package
ArrayExpress ArrayExpress
11.2 years ago Ibrahim Emam ▴ 50
2
votes
2
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1.0k
views
limma - removing samples?
ArrayExpress limma arrays
3.0 years ago RMP87 • 0
1
vote
1
reply
1.2k
views
Error in read.metharray(basenames = files, extended = extended, verbose = verbose, : The following specified files do not exist:201172580052_R02C…
ArrayExpress methylationArrayAnalysis
updated 3.5 years ago by 65k • written 3.5 years ago by • 0
1
vote
4
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2.0k
views
Need help loading gene expression data into R using either ArrayExpress or GEOquery R packages
arrayexpress geoquery geneexpression
updated 6.1 years ago by 21k • written 6.1 years ago by ▴ 10
1
vote
1
reply
1.1k
views
Agilent Data Normalization Result
limma agilent arrayexpress
updated 6.1 years ago by 50k • written 6.1 years ago by • 0
0
votes
2
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1.0k
views
About ArrayExpress MAGE-TAB tools
Microarray GEOquery ArrayExpress Microarray GEOquery ArrayExpress
updated 15.9 years ago by ▴ 280 • written 15.9 years ago by ▴ 450
0
votes
0
replies
1.3k
views
Bioinformatics course - October 2011 Registration is now open
Microarray Cancer biomaRt ArrayExpress genomes SANTA Microarray Cancer biomaRt genomes
12.6 years ago Claude Chelala ▴ 40
0
votes
1
reply
835
views
An importMAGEML problem in RMAGEML Package
RMAGEML ArrayExpress RMAGEML ArrayExpress
updated 15.8 years ago by ★ 13k • written 15.8 years ago by ▴ 10
0
votes
2
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1.4k
views
Importing "Detailed sample annotation" from ArrayExpress DB into R
ArrayExpress ArrayExpress
15.7 years ago Markus Schmidberger ▴ 380
0
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0
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979
views
RMAGEML installation and ArrayExpress database
RMAGEML ArrayExpress RMAGEML ArrayExpress
15.7 years ago John Lande ▴ 280
0
votes
1
reply
842
views
About ArrayExpress MAGE-TAB tools
Microarray ArrayExpress Microarray ArrayExpress
updated 15.6 years ago by 21k • written 15.6 years ago by ★ 2.0k
0
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0
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766
views
CEL files of ALL data set
ArrayExpress ArrayExpress
15.6 years ago Talloen, Willem [PRDBE] ▴ 10
0
votes
4
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1.0k
views
Reading ArrayExpress data [was Re: questions on the ImaGene data using limma package]
Annotation Normalization Cancer limma ArrayExpress Annotation Normalization Cancer limma
updated 15.5 years ago by ▴ 30 • written 15.5 years ago by 50k
0
votes
0
replies
763
views
CEL files of ALL data set
ArrayExpress ArrayExpress
15.6 years ago Joern Toedling ▴ 730
0
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0
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1.0k
views
CAMDA08 Announcement. Deadline extension
Microarray ArrayExpress Microarray ArrayExpress
15.6 years ago Ana Conesa ▴ 340
0
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1
reply
1.0k
views
Reading ArrayExpress data [was Re: questions on the ImaGene data using limma package]
Annotation Normalization GO Cancer limma ArrayExpress Annotation Normalization GO Cancer
updated 15.5 years ago by ▴ 280 • written 15.5 years ago by 50k
0
votes
0
replies
981
views
CAMDA conference program announcement / early booking discount until 12 Nov!
Microarray ArrayExpress Microarray ArrayExpress
15.5 years ago Dr. D. P. Kreil Boku ▴ 50
0
votes
1
reply
1.2k
views
ArrayExpress package error
ArrayExpress ArrayExpress
updated 15.5 years ago by ▴ 280 • written 15.5 years ago by ▴ 600
0
votes
5
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1.8k
views
Expressionset from ArrayExpress processed data
ArrayExpress SANTA ArrayExpress SANTA
updated 15.3 years ago by 25k • written 15.3 years ago by ▴ 20
0
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2
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1.3k
views
Limma - GenePix
ArrayExpress ArrayExpress
updated 14.9 years ago by ▴ 810 • written 14.9 years ago by ▴ 20
0
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5
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1.5k
views
Limma - GenePix
limma ArrayExpress limma ArrayExpress
updated 14.9 years ago by ▴ 810 • written 14.9 years ago by 50k
0
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0
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717
views
GenePix - Limma
ArrayExpress ArrayExpress
14.9 years ago Juana Arco ▴ 20
0
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0
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1.2k
views
How to use ExpressionSet for further Analysis
convert ArrayExpress convert ArrayExpress
14.8 years ago Md.Mamunur Rashid ▴ 260
0
votes
6
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1.8k
views
regarding package ArrayExpress
ArrayExpress ArrayExpress
updated 14.7 years ago by ▴ 280 • written 14.7 years ago by ▴ 70
0
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2
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2.2k
views
ArrayExpress as NChannelSet data into limma-compatible type
limma convert ArrayExpress SJava limma convert ArrayExpress SJava
updated 14.6 years ago by 25k • written 14.6 years ago by ▴ 60
0
votes
2
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1.1k
views
rma error on an affyBatch from ArrayExpress?
ArrayExpress ArrayExpress
updated 14.6 years ago by 25k • written 14.6 years ago by ▴ 90
0
votes
1
reply
1.2k
views
How to get platform annotation in ExpressionSet object
Annotation ArrayExpress Annotation ArrayExpress
updated 14.6 years ago by 21k • written 14.6 years ago by ▴ 30
0
votes
1
reply
1.1k
views
ArrayExpress error attaching phenodata
ArrayExpress ArrayExpress
updated 14.5 years ago by ▴ 280 • written 14.5 years ago by ★ 1.3k
0
votes
2
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973
views
Annotating Illumina Data from ArrayExpress
convert ArrayExpress convert ArrayExpress
updated 14.5 years ago by ★ 7.2k • written 14.5 years ago by ▴ 260
0
votes
0
replies
733
views
Hapmap miRNA expression data
miRNA HapMap ArrayExpress miRNA HapMap ArrayExpress
14.4 years ago Paul Geeleher ★ 1.3k
0
votes
3
replies
1.2k
views
Reg: normalization of ArrayExpress data
Microarray Normalization GO ArrayExpress Microarray Normalization GO ArrayExpress
14.2 years ago Rohit Farmer ▴ 170
0
votes
1
reply
959
views
Query regarding GEO Database
ArrayExpress ArrayExpress
updated 14.1 years ago by 21k • written 14.1 years ago by ▴ 120
0
votes
1
reply
821
views
Unable to get the Platform Table using fData on eset object
ArrayExpress ArrayExpress
updated 14.0 years ago by ★ 13k • written 14.0 years ago by ▴ 30
0
votes
0
replies
825
views
ArrayExpress User Survey
ArrayExpress ArrayExpress
14.0 years ago Wolfgang Huber ★ 13k
0
votes
1
reply
955
views
Reg: Reading SMD data using ArrayExpress pacakage
ArrayExpress ArrayExpress
updated 13.9 years ago by ▴ 60 • written 13.9 years ago by ▴ 170
0
votes
1
reply
931
views
Reading SMD data in limma
limma ArrayExpress limma ArrayExpress
updated 13.9 years ago by ▴ 90 • written 13.9 years ago by ▴ 170
0
votes
2
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1.1k
views
Reading SMD data in limma
limma ArrayExpress limma ArrayExpress
13.9 years ago Gordon Smyth 50k
0
votes
2
replies
2.0k
views
ArrayExpress: missing cdf environment!
Cancer hgu133a cdf ArrayExpress Cancer hgu133a cdf ArrayExpress
updated 13.6 years ago by ★ 13k • written 13.6 years ago by ▴ 110
0
votes
2
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1.3k
views
Problem importing ArrayExpress data for custom array into BioConductor
Microarray cdf ArrayExpress Microarray cdf ArrayExpress
updated 13.5 years ago by ★ 13k • written 13.6 years ago by ▴ 10
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Comment: deseq2 results by swbarnes2 ★ 1.4k
Ask the people who made the libraires if there was anything unusual in the QC of the outlier sample. Try to figure out what biologically …
Comment: Can't post a question containing code? by NATASHA • 0
did you find a solution? I´m having the same problem
Comment: error by NATASHA • 0
Please ignore, i didnt copy all the scrip
Comment: Extremely small p-values using Limma for proteomic data by James W. MacDonald 65k
If you ever find yourself using the `@` function, you should reconsider what you are doing. There are vanishingly small instances when an e…
Comment: How to use bootRanges to bootstrap small RNA loci (nullranges package) by Michael Love 42k
Here is some example code <https://gist.github.com/mikelove/cbbc84634b6854c865cb5eb08ad9b245>
Votes
A: AIC-like measure for DESeq2
Comment: Extremely small p-values using Limma for proteomic data
Comment: Log-cpm values from limma
Comment: Log-cpm values from limma
Comment: deseq2 results
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