Showing : arrayexpress • reset
1
vote
2
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85
views
limma - removing samples?
ArrayExpress limma arrays
3 days ago RMP87 • 0
4
votes
2
replies
112
views
TargetsFile. Where it is?
Limma ArrayExpress GEO
updated 4 weeks ago by 56k • written 4 weeks ago by • 0
3
votes
2
replies
102
views
NChannelSet --> eSet/expressionSet ? How to transform?
ExpressionData ArrayExpress
updated 4 weeks ago by 42k • written 4 weeks ago by • 0
0
votes
1
reply
90
views
Error in read.metharray(basenames = files, extended = extended, verbose = verbose, : The following specified files do not exist:201172580052_R02C…
ArrayExpress methylationArrayAnalysis
updated 6 months ago by 56k • written 6 months ago by • 0
0
votes
2
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146
views
Regarding ArrayExpress package
microarray arrayexpress
updated 7 months ago by 56k • written 7 months ago by • 0
0
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0
replies
79
views
ArrayExpress error when creating rawset
ArrayExpress arrayexpress
14 months ago Majeed MJ • 0
3
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4
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852
views
lm.fit incompatible dimensions
oligo arrayexpress limma
updated 15 months ago by • 0 • written 2.3 years ago by • 0
2
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3
replies
517
views
Could not access the Bioconductor repository
bioconductor proxy arrayexpress
updated 2.3 years ago by 56k • written 2.3 years ago by • 0
3
votes
5
replies
1.0k
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 2.7 years ago by 42k • written 2.7 years ago by ▴ 780
1
vote
4
replies
645
views
Need help loading gene expression data into R using either ArrayExpress or GEOquery R packages
arrayexpress geoquery geneexpression
updated 3.1 years ago by 21k • written 3.1 years ago by ▴ 10
1
vote
1
reply
336
views
Agilent Data Normalization Result
limma agilent arrayexpress
updated 3.2 years ago by 42k • written 3.2 years ago by • 0
0
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0
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350
views
Error in building expression set for ArrayExpress
microarray expressionset arrayexpress bioconductor r
3.2 years ago rfes • 0
0
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0
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292
views
Why procset(files, procol) requires exactly one column name?
ArrayExpress
3.2 years ago klv2706w ▴ 10
0
votes
2
replies
694
views
AffyBatch and ArrayExpress
arrayexpress affy bugs
updated 3.2 years ago by 56k • written 3.2 years ago by ▴ 230
0
votes
1
reply
536
views
Downloading Twochannel microarray data from ArrayExpress
arrayexpress twochannel microarray
3.6 years ago Andy91 ▴ 60
3
votes
6
replies
1.3k
views
function getAE from ArrayExpress needs update because EBI has switched to https
arrayexpress xml rcurl http EBI
updated 3.6 years ago by 13k • written 3.6 years ago by ▴ 590
4
votes
1
reply
752
views
Mismatched ArrayExpress microarray annotation package
arrayexpress ArrayExpress hthgu133a.db
3.9 years ago sandmann.t ▴ 70
0
votes
1
reply
715
views
ArrayExpress fails with experiments without array data but could still return parsed .idf and .sdrf
ArrayExpress
4.3 years ago Andrew_McDavid ▴ 260
2
votes
1
reply
616
views
Output of ArrayExpress() function
oligo oligoclasses arrayexpress
updated 4.3 years ago by 56k • written 4.3 years ago by • 0
2
votes
3
replies
889
views
ArrayExpress unable to find raw data: "Experiment has no raw files available"
arrayexpress
updated 4.5 years ago by ▴ 20 • written 4.5 years ago by ▴ 130
0
votes
0
replies
527
views
error while using queryAE function for human transcription profiling experiments
ArrayExpress microarray R
4.7 years ago deepue ▴ 10
0
votes
0
replies
590
views
Export expressionSet to ArrayExpress "processed data"
expressionset simpleaffy arrayexpress tsv
4.8 years ago Steffen Neumann ▴ 30
0
votes
5
replies
766
views
arrayExpress: problem running code from the vignette
arrayexpress
5.0 years ago kevin.rue ▴ 300
0
votes
1
reply
1.3k
views
Error while reading ArrayExpress dataset
arrayexpress
updated 5.9 years ago by 56k • written 5.9 years ago by • 0
0
votes
3
replies
730
views
Differential Expression of c.diff. microarray
arrayexpress differential expression
6.0 years ago SSK ▴ 10
0
votes
1
reply
737
views
ArrayExpress (finding differential expression using bioconductor+C)
arrayexpress differential expression
6.0 years ago SSK ▴ 10
0
votes
1
reply
971
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 7.1 years ago by 56k • written 7.1 years ago by ★ 12k
0
votes
1
reply
919
views
Problem with NChannelSet objects using Agilent Data with arrayQualityMetrics package
arrayQualityMetrics ArrayExpress arrayQualityMetrics ArrayExpress
updated 7.2 years ago by 13k • written 7.2 years ago by ▴ 20
0
votes
5
replies
1.1k
views
XML package - 500 internal server error
GEOquery ArrayExpress GEOquery ArrayExpress
updated 8.0 years ago by 21k • written 8.0 years ago by ▴ 720
2
votes
0
replies
679
views
Fix for queryAE() in the ArrayExpress package
ArrayExpress ArrayExpress
8.2 years ago Ibrahim Emam ▴ 50
0
votes
0
replies
984
views
Loading eSet.r objects from ArrayExpress
ArrayExpress ArrayExpress
8.2 years ago Ibrahim Emam ▴ 50
0
votes
0
replies
877
views
Loading eSet.r objects from ArrayExpress
ArrayExpress ArrayExpress
8.3 years ago Mirza, Nasir ▴ 40
0
votes
2
replies
733
views
Error when using impute to get missing values
impute ArrayExpress impute ArrayExpress
updated 9.1 years ago by ★ 4.2k • written 9.1 years ago by ▴ 10
0
votes
1
reply
1.2k
views
Error by using gpr data with marray
limma marray ArrayExpress limma marray ArrayExpress
updated 9.2 years ago by 13k • written 9.2 years ago by ★ 12k
0
votes
2
replies
998
views
Odd warning in simpleaffy, using quality control
cdf probe simpleaffy ArrayExpress cdf probe simpleaffy ArrayExpress
updated 9.2 years ago by ▴ 280 • written 9.2 years ago by ▴ 720
0
votes
0
replies
756
views
Odd warning in simpleaffy, using quality control
cdf simpleaffy ArrayExpress cdf simpleaffy ArrayExpress
9.2 years ago David Westergaard ▴ 280
0
votes
1
reply
816
views
ArrayExpress error: unable to find an inherited method for function \"experimentData\", for signature \"try-error\"
ArrayExpress ArrayExpress
updated 9.5 years ago by ▴ 20 • written 9.5 years ago by ▴ 30
0
votes
1
reply
811
views
ArrayExpress error: unable to find an inherited method for function \"experimentData\", for signature \"try-error\"
ArrayExpress ArrayExpress
updated 9.5 years ago by 6.4k • written 9.5 years ago by ★ 12k
0
votes
0
replies
615
views
Problem with limma for two-color factorial design - Coefficients not estimable
Microarray Normalization limma ArrayExpress Microarray Normalization limma ArrayExpress
9.6 years ago Stephen Turner ▴ 270
0
votes
0
replies
762
views
Bioinformatics course - October 2011 Registration is now open
Microarray Cancer biomaRt ArrayExpress genomes SANTA Microarray Cancer biomaRt genomes
9.6 years ago Claude Chelala ▴ 40
0
votes
5
replies
755
views
Combining data from different versions of Illumina HumanHT-12 v3
Normalization probe limma safe ArrayExpress Normalization probe limma safe ArrayExpress
updated 10.0 years ago by ★ 3.3k • written 10.0 years ago by ▴ 220
0
votes
1
reply
904
views
Combining data from different versions of Illumina HumanHT-12 v3
Normalization probe safe ArrayExpress Normalization probe safe ArrayExpress
updated 10.1 years ago by ★ 3.3k • written 10.1 years ago by ▴ 220
0
votes
14
replies
923
views
Combining data from different versions of Illumina HumanHT-12 v3
probe limma ArrayExpress probe limma ArrayExpress
updated 10.1 years ago by ★ 3.3k • written 10.1 years ago by ▴ 220
0
votes
1
reply
472
views
magetab2bioc error
ArrayExpress ArrayExpress
updated 10.1 years ago by 13k • written 10.1 years ago by ▴ 10
0
votes
0
replies
596
views
limma design problem with a two color dataset
Microarray Normalization limma ArrayExpress Microarray Normalization limma ArrayExpress
10.1 years ago Gordon Smyth 42k
0
votes
0
replies
601
views
limma design problem with a two color dataset
Microarray Normalization limma ArrayExpress Microarray Normalization limma ArrayExpress
10.2 years ago Yong Li ▴ 190
0
votes
2
replies
1.4k
views
comparing HG-U219 data to HG-U133 data from public databases
Normalization convert ArrayExpress Normalization convert ArrayExpress
updated 10.2 years ago by ▴ 110 • written 10.2 years ago by ▴ 290
0
votes
0
replies
650
views
beadarray: how to create BeadStudio output after createBeadSummaryData
PROcess beadarray ArrayExpress PROcess beadarray ArrayExpress
10.3 years ago Cei Abreu-Goodger ▴ 830
0
votes
2
replies
794
views
Problem importing ArrayExpress data for custom array into BioConductor
Microarray cdf ArrayExpress Microarray cdf ArrayExpress
updated 10.6 years ago by 13k • written 10.6 years ago by ▴ 10
0
votes
3
replies
784
views
Error loading ArrayExpress in R 2.12 Mac
ArrayExpress ArrayExpress
updated 10.6 years ago by 21k • written 10.6 years ago by ▴ 550
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Comment: Warning in EnhancedVolcano plot by Kevin Blighe 2.9k
Thanks - that is interesting to know.
Comment: Warning in EnhancedVolcano plot by charles.feigin ▴ 20
Sorry, one more quick reply. So, changing lengthConnectors and/or directionConnectors doesn't let me render any more connectors, but I foun…
Comment: Warning in EnhancedVolcano plot by charles.feigin ▴ 20
Ok I understand. I'll play around with these. Thank you!
Answer: How to make OrgPackage (BSgenome data) package available for R Bioconductor user by Hervé Pagès 14k
What organisms are they?
Comment: "dim<-" against on-disk arrays by Hervé Pagès 14k
I will look into this although I don't promise anything. Even though many of the operations supported by standard arrays can be implemented…
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Comment: Warning in EnhancedVolcano plot
Comment: Warning in EnhancedVolcano plot
Comment: Warning in EnhancedVolcano plot
Comment: Warning in EnhancedVolcano plot
A: How to make a (limma) heatmap displaying gene ID's as rownames
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