Showing : ArrayExpress • reset
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Combining data from different versions of Illumina HumanHT-12 v3
probe limma ArrayExpress probe limma ArrayExpress
updated 13.1 years ago by ★ 3.6k • written 13.1 years ago by ▴ 220
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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
0
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6
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1.8k
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regarding package ArrayExpress
ArrayExpress ArrayExpress
updated 14.7 years ago by ▴ 280 • written 14.7 years ago by ▴ 70
3
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6
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2.8k
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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
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5
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1.6k
views
Combining data from different versions of Illumina HumanHT-12 v3
Normalization probe limma safe ArrayExpress Normalization probe limma safe ArrayExpress
updated 13.0 years ago by ★ 3.6k • written 13.0 years ago by ▴ 220
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5
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1.8k
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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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5
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1.9k
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XML package - 500 internal server error
GEOquery ArrayExpress GEOquery ArrayExpress
updated 11.0 years ago by 21k • written 11.0 years ago by ▴ 720
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5
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1.8k
views
arrayExpress: problem running code from the vignette
arrayexpress
8.0 years ago kevin.rue ▴ 350
4
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5
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1.9k
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time course microarray data ArrayExpress database
R GillespieColin ArrayExpress import TimeSeriesExperiment
updated 7 months ago by ▴ 40 • written 18 months ago by ▴ 20
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5
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3.2k
views
loading processed data into eset class
ArrayExpress ArrayExpress
updated 13.8 years ago by 6.7k • written 13.8 years ago by ▴ 90
6
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5
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3.2k
views
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
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
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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
3
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4
replies
2.9k
views
lm.fit incompatible dimensions
oligo arrayexpress limma
updated 4.2 years ago by • 0 • written 5.3 years ago by • 0
1
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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
0
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3
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213
views
Assist me in determining whether the analysis process using the limma package has been executed correctly.
GEOquery ArrayExpress limma DifferentialExpression
updated 2 days ago by 65k • written 3 days ago by • 0
0
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3
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1.2k
views
Reg: normalization of ArrayExpress data
Microarray Normalization GO ArrayExpress Microarray Normalization GO ArrayExpress
14.2 years ago Rohit Farmer ▴ 170
0
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3
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1.1k
views
mageml
ArrayExpress ArrayExpress
updated 20.5 years ago by 6.7k • written 20.5 years ago by ▴ 20
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3
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1.4k
views
Error loading ArrayExpress in R 2.12 Mac
ArrayExpress ArrayExpress
updated 13.5 years ago by 21k • written 13.5 years ago by ▴ 550
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 7.4 years ago by ▴ 20 • written 7.4 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
0
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3
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1.4k
views
Differential Expression of c.diff. microarray
arrayexpress differential expression
9.0 years ago SSK ▴ 10
0
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2
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1.6k
views
AffyBatch and ArrayExpress
arrayexpress affy bugs
updated 6.2 years ago by 65k • written 6.2 years ago by ▴ 230
2
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2
replies
801
views
Simple queryAE command returning "Error: 1: Document is empty"
queryAE ArrayExpress
17 months ago alekeuro ▴ 10
0
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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 13.5 years ago by ▴ 10
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2
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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
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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
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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
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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
3
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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
4
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2
replies
1.3k
views
TargetsFile. Where it is?
Limma ArrayExpress GEO
updated 3.1 years ago by 65k • written 3.1 years ago by • 0
0
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2
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1.2k
views
Regarding ArrayExpress package
microarray arrayexpress
updated 3.6 years ago by 65k • written 3.6 years ago by • 0
0
votes
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
2
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2
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1.0k
views
limma - removing samples?
ArrayExpress limma arrays
3.0 years ago RMP87 • 0
0
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2
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1.8k
views
Odd warning in simpleaffy, using quality control
cdf probe simpleaffy ArrayExpress cdf probe simpleaffy ArrayExpress
updated 12.2 years ago by ▴ 280 • written 12.2 years ago by ▴ 720
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2
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1.4k
views
Error when using impute to get missing values
impute ArrayExpress impute ArrayExpress
updated 12.1 years ago by ★ 4.2k • written 12.1 years ago by ▴ 10
0
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2
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969
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
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2
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1.0k
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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
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2
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2.4k
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comparing HG-U219 data to HG-U133 data from public databases
Normalization convert ArrayExpress Normalization convert ArrayExpress
updated 13.2 years ago by ▴ 110 • written 13.2 years ago by ▴ 340
0
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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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1
reply
1.9k
views
Error while reading ArrayExpress dataset
arrayexpress
updated 8.9 years ago by 65k • written 8.9 years ago by • 0
0
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1
reply
1.5k
views
ArrayExpress error: unable to find an inherited method for function \"experimentData\", for signature \"try-error\"
ArrayExpress ArrayExpress
updated 12.4 years ago by ▴ 20 • written 12.4 years ago by ▴ 30
0
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1
reply
615
views
I need published data with bio and tech reps
ArrayExpress ArrayExpress
updated 18.8 years ago by ▴ 80 • written 18.8 years ago by ★ 6.0k
0
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1
reply
1.2k
views
CodeLink Package: Not a Codelink exported file.
codelink ArrayExpress codelink ArrayExpress
updated 18.1 years ago by ▴ 760 • written 18.1 years ago by ▴ 600
0
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1
reply
949
views
making ExpressionSet from ArrayExpress
convert ArrayExpress convert ArrayExpress
updated 17.3 years ago by ▴ 580 • written 17.3 years ago by ★ 13k
0
votes
1
reply
831
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
1
reply
838
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
votes
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
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
1
reply
1.1k
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
50 results • Page 1 of 1
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Replies
Comment: Deseq2 and Normalization of RNA sequencing data by kcarey • 0
Noise in terms of expression...to make sure that the information reported is not due to artifacts and actually expression. When I had FPKM …
Answer: NEED FOR NESSASORY HELP by Gordon Smyth 50k
Is this quesion related to your earlier question? https://support.bioconductor.org/p/9157127/ If you've already done an edgeR analysis, yo…
Answer: Gene-by-sample covariates in limma by Gordon Smyth 50k
Your first method would be valid if, instead of taking ratios, you instead used the differences between the log-transformed 13C and 12C int…
Answer: Why does GSEA on edgeR results for randomized samples give highly significant p- by Gordon Smyth 50k
You have discovered something that I have pointed out many times on this forum. fgsea does not implement the classic GSEA method published …
Comment: Once again a "Model matrix not full rank" by James W. MacDonald 65k
In that case both time and treatment are identical things, so choose one and go with it.
Votes
Bioconductor 3.19 is Released!
A: Error in DESeqDataSet : some values in assay are not integers
Bioconductor 3.19 is Released!
Bioconductor 3.19 is Released!
Answer: DEseq2 coefficient
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