Showing : ArrayExpress • reset
6
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5
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3.8k
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 6.5 years ago by 52k • written 6.5 years ago by ▴ 840
3
votes
4
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3.8k
views
lm.fit incompatible dimensions
oligo arrayexpress limma
updated 5.1 years ago by • 0 • written 6.2 years ago by • 0
0
votes
8
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3.7k
views
Reading Agilent files using read.maimages
Survival DynDoc genefilter tkWidgets affy vsn marray convert ArrayExpress Survival affy
updated 17.6 years ago by ▴ 20 • written 17.6 years ago by ▴ 100
0
votes
5
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3.6k
views
loading processed data into eset class
ArrayExpress ArrayExpress
updated 14.6 years ago by 6.7k • written 14.6 years ago by ▴ 90
3
votes
6
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3.4k
views
function getAE from ArrayExpress needs update because EBI has switched to https
arrayexpress xml rcurl http EBI
updated 7.5 years ago by ★ 13k • written 7.5 years ago by ▴ 610
0
votes
2
replies
2.8k
views
comparing HG-U219 data to HG-U133 data from public databases
Normalization convert ArrayExpress Normalization convert ArrayExpress
updated 14.0 years ago by ▴ 110 • written 14.0 years ago by ▴ 340
0
votes
14
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2.7k
views
Combining data from different versions of Illumina HumanHT-12 v3
probe limma ArrayExpress probe limma ArrayExpress
updated 13.9 years ago by ★ 3.6k • written 13.9 years ago by ▴ 220
2
votes
3
replies
2.6k
views
ArrayExpress unable to find raw data: "Experiment has no raw files available"
arrayexpress
updated 8.3 years ago by ▴ 20 • written 8.3 years ago by ▴ 180
1
vote
4
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2.5k
views
Need help loading gene expression data into R using either ArrayExpress or GEOquery R packages
arrayexpress geoquery geneexpression
updated 6.9 years ago by 21k • written 6.9 years ago by ▴ 10
0
votes
2
replies
2.5k
views
ArrayExpress as NChannelSet data into limma-compatible type
limma convert ArrayExpress SJava limma convert ArrayExpress SJava
updated 15.5 years ago by 25k • written 15.5 years ago by ▴ 60
4
votes
5
replies
2.4k
views
time course microarray data ArrayExpress database
R GillespieColin ArrayExpress import TimeSeriesExperiment
updated 17 months ago by ▴ 40 • written 2.4 years ago by ▴ 20
0
votes
1
reply
2.3k
views
Error by using gpr data with marray
limma marray ArrayExpress limma marray ArrayExpress
updated 13.0 years ago by ★ 13k • written 13.0 years ago by ★ 13k
0
votes
5
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2.3k
views
arrayExpress: problem running code from the vignette
arrayexpress
8.9 years ago kevin.rue ▴ 350
0
votes
2
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2.2k
views
ArrayExpress: missing cdf environment!
Cancer hgu133a cdf ArrayExpress Cancer hgu133a cdf ArrayExpress
updated 14.4 years ago by ★ 13k • written 14.4 years ago by ▴ 110
0
votes
5
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2.2k
views
XML package - 500 internal server error
GEOquery ArrayExpress GEOquery ArrayExpress
updated 11.9 years ago by 21k • written 11.9 years ago by ▴ 740
0
votes
1
reply
2.2k
views
Error while reading ArrayExpress dataset
arrayexpress
updated 9.8 years ago by 68k • written 9.8 years ago by • 0
0
votes
2
replies
2.1k
views
Odd warning in simpleaffy, using quality control
cdf probe simpleaffy ArrayExpress cdf probe simpleaffy ArrayExpress
updated 13.1 years ago by ▴ 280 • written 13.1 years ago by ▴ 740
0
votes
5
replies
2.1k
views
Expressionset from ArrayExpress processed data
ArrayExpress SANTA ArrayExpress SANTA
updated 16.2 years ago by 25k • written 16.2 years ago by ▴ 20
0
votes
6
replies
2.1k
views
regarding package ArrayExpress
ArrayExpress ArrayExpress
updated 15.5 years ago by ▴ 280 • written 15.5 years ago by ▴ 70
2
votes
3
replies
1.9k
views
Could not access the Bioconductor repository
bioconductor proxy arrayexpress
updated 6.2 years ago by 68k • written 6.2 years ago by • 0
0
votes
1
reply
1.9k
views
Reading MAGE-ML cdf into bioconductor for limma in R v. 3.0.2
Microarray cdf probe makecdfenv RMAGEML ArrayExpress Microarray cdf probe makecdfenv
updated 11.0 years ago by 68k • written 11.0 years ago by ★ 13k
0
votes
2
replies
1.9k
views
AffyBatch and ArrayExpress
arrayexpress affy bugs
updated 7.0 years ago by 68k • written 7.0 years ago by ▴ 230
4
votes
1
reply
1.9k
views
Mismatched ArrayExpress microarray annotation package
arrayexpress ArrayExpress hthgu133a.db
7.7 years ago sandmann.t ▴ 70
0
votes
5
replies
1.9k
views
Combining data from different versions of Illumina HumanHT-12 v3
Normalization probe limma safe ArrayExpress Normalization probe limma safe ArrayExpress
updated 13.9 years ago by ★ 3.6k • written 13.9 years ago by ▴ 220
0
votes
0
replies
1.9k
views
Loading eSet.r objects from ArrayExpress
ArrayExpress ArrayExpress
12.0 years ago Ibrahim Emam ▴ 50
0
votes
1
reply
1.8k
views
Combining data from different versions of Illumina HumanHT-12 v3
Normalization probe safe ArrayExpress Normalization probe safe ArrayExpress
updated 13.9 years ago by ★ 3.6k • written 13.9 years ago by ▴ 220
0
votes
1
reply
1.7k
views
Problem with NChannelSet objects using Agilent Data with arrayQualityMetrics package
arrayQualityMetrics ArrayExpress arrayQualityMetrics ArrayExpress
updated 11.1 years ago by ★ 13k • written 11.1 years ago by ▴ 20
0
votes
1
reply
1.7k
views
ArrayExpress error: unable to find an inherited method for function \"experimentData\", for signature \"try-error\"
ArrayExpress ArrayExpress
updated 13.3 years ago by ▴ 20 • written 13.3 years ago by ▴ 30
0
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5
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1.7k
views
Limma - GenePix
limma ArrayExpress limma ArrayExpress
updated 15.7 years ago by ▴ 810 • written 15.7 years ago by 52k
0
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3
replies
1.7k
views
Error loading ArrayExpress in R 2.12 Mac
ArrayExpress ArrayExpress
updated 14.4 years ago by 21k • written 14.4 years ago by ▴ 550
0
votes
2
replies
1.7k
views
Importing "Detailed sample annotation" from ArrayExpress DB into R
ArrayExpress ArrayExpress
16.6 years ago Markus Schmidberger ▴ 380
0
votes
1
reply
1.6k
views
Downloading Twochannel microarray data from ArrayExpress
arrayexpress twochannel microarray
7.4 years ago Andy91 ▴ 60
0
votes
1
reply
1.6k
views
ArrayExpress error: unable to find an inherited method for function \"experimentData\", for signature \"try-error\"
ArrayExpress ArrayExpress
updated 13.3 years ago by 6.7k • written 13.3 years ago by ★ 13k
0
votes
2
replies
1.6k
views
Error when using impute to get missing values
impute ArrayExpress impute ArrayExpress
updated 13.0 years ago by ★ 4.2k • written 13.0 years ago by ▴ 10
0
votes
1
reply
1.6k
views
ArrayExpress fails with experiments without array data but could still return parsed .idf and .sdrf
ArrayExpress
8.1 years ago Andrew_McDavid ▴ 270
4
votes
2
replies
1.6k
views
TargetsFile. Where it is?
Limma ArrayExpress GEO
updated 3.9 years ago by 68k • written 3.9 years ago by • 0
0
votes
3
replies
1.6k
views
Differential Expression of c.diff. microarray
arrayexpress differential expression
9.9 years ago SSK ▴ 10
0
votes
2
replies
1.6k
views
Limma - GenePix
ArrayExpress ArrayExpress
updated 15.7 years ago by ▴ 810 • written 15.7 years ago by ▴ 20
0
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0
replies
1.6k
views
Export expressionSet to ArrayExpress "processed data"
expressionset simpleaffy arrayexpress tsv
8.6 years ago Steffen Neumann ▴ 30
0
votes
1
reply
1.5k
views
ArrayExpress (finding differential expression using bioconductor+C)
arrayexpress differential expression
9.9 years ago SSK ▴ 10
1
vote
1
reply
1.5k
views
Error in read.metharray(basenames = files, extended = extended, verbose = verbose, : The following specified files do not exist:201172580052_R02C…
ArrayExpress methylationArrayAnalysis
updated 4.4 years ago by 68k • written 4.4 years ago by • 0
0
votes
2
replies
1.5k
views
Regarding ArrayExpress package
microarray arrayexpress
updated 4.5 years ago by 68k • written 4.5 years ago by • 0
0
votes
0
replies
1.5k
views
Loading eSet.r objects from ArrayExpress
ArrayExpress ArrayExpress
12.1 years ago Mirza, Nasir ▴ 40
0
votes
2
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1.5k
views
Problem importing ArrayExpress data for custom array into BioConductor
Microarray cdf ArrayExpress Microarray cdf ArrayExpress
updated 14.4 years ago by ★ 13k • written 14.4 years ago by ▴ 10
0
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0
replies
1.5k
views
Bioinformatics course - October 2011 Registration is now open
Microarray Cancer biomaRt ArrayExpress genomes SANTA Microarray Cancer biomaRt genomes
13.4 years ago Claude Chelala ▴ 40
3
votes
2
replies
1.4k
views
NChannelSet --> eSet/expressionSet ? How to transform?
ExpressionData ArrayExpress
updated 3.9 years ago by 52k • written 3.9 years ago by • 0
2
votes
1
reply
1.4k
views
Output of ArrayExpress() function
oligo oligoclasses arrayexpress
updated 8.1 years ago by 68k • written 8.1 years ago by • 0
0
votes
0
replies
1.4k
views
Odd warning in simpleaffy, using quality control
cdf simpleaffy ArrayExpress cdf simpleaffy ArrayExpress
13.1 years ago David Westergaard ▴ 280
0
votes
3
replies
1.4k
views
Reg: normalization of ArrayExpress data
Microarray Normalization GO ArrayExpress Microarray Normalization GO ArrayExpress
15.0 years ago Rohit Farmer ▴ 170
0
votes
1
reply
1.4k
views
CodeLink Package: Not a Codelink exported file.
codelink ArrayExpress codelink ArrayExpress
updated 18.9 years ago by ▴ 760 • written 18.9 years ago by ▴ 600
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Exact OMCIS reproduction down to the values without code and software version is borderline impossible. Either use the values as provided o…
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Alternatively, you could have added a column with the common gene names. Assuming your dataframe `df` was created using `DESeq()`, somethin…
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It appears that 'negative regulation of glycogen biosynthesis' has an 'is a' relationship with 'glycogen biosynthetic process' https://www.…
Comment: Can't post a question? by DavideSant • 0
Thank you, this was super useful!
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Comment: Can't post a question?
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