Showing : arrayexpress • reset
0
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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
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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
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
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5
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1.6k
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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
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5
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1.9k
views
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
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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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3.3k
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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
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5
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1.5k
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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
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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
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3
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228
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Assist me in determining whether the analysis process using the limma package has been executed correctly.
GEOquery ArrayExpress limma DifferentialExpression
updated 4 days ago by 65k • written 5 days ago by • 0
0
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3
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1.2k
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Reg: normalization of ArrayExpress data
Microarray Normalization GO ArrayExpress Microarray Normalization GO ArrayExpress
14.2 years ago Rohit Farmer ▴ 170
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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 7.5 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
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
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803
views
Simple queryAE command returning "Error: 1: Document is empty"
queryAE ArrayExpress
17 months ago alekeuro ▴ 10
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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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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
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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
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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
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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
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Regarding ArrayExpress package
microarray arrayexpress
updated 3.6 years ago by 65k • written 3.6 years ago by • 0
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
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
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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
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2
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970
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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
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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
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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
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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
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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
950
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
832
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
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1
reply
839
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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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
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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
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1
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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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Answer: How to use bootRanges to bootstrap small RNA loci (nullranges package) by Poonam • 0
Hi Michael, I think there is something wrong with the generation of nullranges. I was working with small RNA and methylation overlaps. …
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Replicate numbers, like the 1 in control_1 are fine in sample names, but never add them to anything else in colData. From the computer's p…
Answer: limma Intercept vs No-intercept models completely changing DMR results? by Gordon Smyth 50k
I'll add a little bit of general advice to James' answer. You seem to have the misunderstanding that you can change the design matrix but …
Answer: package goseq seems to be not available on the latest version of R by Gordon Smyth 50k
It is true that goseq isn't available for Bioc 3.19 (as at 4 May 2024). In the meantime, you could consider using the goana() and kegga() …
Answer: limma Intercept vs No-intercept models completely changing DMR results? by James W. MacDonald 65k
This part: ``` design_intercept <- model.matrix(~Alt+Sex+Age+PC1, data=targets_Sherpa) colnames(design_intercept) <- c("AltSHP_LA","Al…
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Answer: limma Intercept vs No-intercept models completely changing DMR results?
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