Showing : arrayexpress • reset
2
votes
2
replies
218
views
Simple queryAE command returning "Error: 1: Document is empty"
queryAE ArrayExpress
11 weeks ago alekeuro • 0
3
votes
3
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539
views
time course microarray data ArrayExpress database
R GillespieColin ArrayExpress import TimeSeriesExperiment
updated 3 months ago by 62k • written 3 months ago by ▴ 20
1
vote
2
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523
views
limma - removing samples?
ArrayExpress limma arrays
21 months ago RMP87 • 0
4
votes
2
replies
741
views
TargetsFile. Where it is?
Limma ArrayExpress GEO
updated 22 months ago by 62k • written 22 months ago by • 0
3
votes
2
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648
views
NChannelSet --> eSet/expressionSet ? How to transform?
ExpressionData ArrayExpress
updated 22 months ago by 47k • written 22 months ago by • 0
0
votes
1
reply
444
views
Error in read.metharray(basenames = files, extended = extended, verbose = verbose, : The following specified files do not exist:201172580052_R02C…
ArrayExpress methylationArrayAnalysis
updated 2.3 years ago by 62k • written 2.3 years ago by • 0
0
votes
2
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718
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Regarding ArrayExpress package
microarray arrayexpress
updated 2.4 years ago by 62k • written 2.4 years ago by • 0
0
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0
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389
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ArrayExpress error when creating rawset
ArrayExpress arrayexpress
3.0 years ago Majeed MJ • 0
3
votes
4
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1.9k
views
lm.fit incompatible dimensions
oligo arrayexpress limma
updated 3.0 years ago by • 0 • written 4.1 years ago by • 0
2
votes
3
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977
views
Could not access the Bioconductor repository
bioconductor proxy arrayexpress
updated 4.1 years ago by 62k • written 4.1 years ago by • 0
6
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5
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2.2k
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 4.4 years ago by 47k • written 4.4 years ago by ▴ 800
1
vote
4
replies
1.3k
views
Need help loading gene expression data into R using either ArrayExpress or GEOquery R packages
arrayexpress geoquery geneexpression
updated 4.8 years ago by 21k • written 4.8 years ago by ▴ 10
1
vote
1
reply
704
views
Agilent Data Normalization Result
limma agilent arrayexpress
updated 4.9 years ago by 47k • written 4.9 years ago by • 0
0
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0
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640
views
Error in building expression set for ArrayExpress
microarray expressionset arrayexpress bioconductor r
4.9 years ago rf • 0
0
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0
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508
views
Why procset(files, procol) requires exactly one column name?
ArrayExpress
4.9 years ago klv2706w ▴ 10
0
votes
2
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1.1k
views
AffyBatch and ArrayExpress
arrayexpress affy bugs
updated 4.9 years ago by 62k • written 4.9 years ago by ▴ 230
0
votes
1
reply
840
views
Downloading Twochannel microarray data from ArrayExpress
arrayexpress twochannel microarray
5.3 years ago Andy91 ▴ 60
3
votes
6
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2.0k
views
function getAE from ArrayExpress needs update because EBI has switched to https
arrayexpress xml rcurl http EBI
updated 5.3 years ago by 13k • written 5.4 years ago by ▴ 600
4
votes
1
reply
1.2k
views
Mismatched ArrayExpress microarray annotation package
arrayexpress ArrayExpress hthgu133a.db
5.6 years ago sandmann.t ▴ 70
0
votes
1
reply
991
views
ArrayExpress fails with experiments without array data but could still return parsed .idf and .sdrf
ArrayExpress
6.0 years ago Andrew_McDavid ▴ 260
2
votes
1
reply
886
views
Output of ArrayExpress() function
oligo oligoclasses arrayexpress
updated 6.0 years ago by 62k • written 6.0 years ago by • 0
2
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3
replies
1.5k
views
ArrayExpress unable to find raw data: "Experiment has no raw files available"
arrayexpress
updated 6.2 years ago by ▴ 20 • written 6.2 years ago by ▴ 180
0
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0
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774
views
error while using queryAE function for human transcription profiling experiments
ArrayExpress microarray R
6.5 years ago deepue ▴ 10
0
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0
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903
views
Export expressionSet to ArrayExpress "processed data"
expressionset simpleaffy arrayexpress tsv
6.5 years ago Steffen Neumann ▴ 30
0
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5
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1.2k
views
arrayExpress: problem running code from the vignette
arrayexpress
6.8 years ago kevin.rue ▴ 320
0
votes
1
reply
1.6k
views
Error while reading ArrayExpress dataset
arrayexpress
updated 7.6 years ago by 62k • written 7.6 years ago by • 0
0
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3
replies
1.0k
views
Differential Expression of c.diff. microarray
arrayexpress differential expression
7.8 years ago SSK ▴ 10
0
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1
reply
1.1k
views
ArrayExpress (finding differential expression using bioconductor+C)
arrayexpress differential expression
7.8 years ago SSK ▴ 10
0
votes
1
reply
1.3k
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 8.9 years ago by 62k • written 8.9 years ago by ★ 12k
0
votes
1
reply
1.2k
views
Problem with NChannelSet objects using Agilent Data with arrayQualityMetrics package
arrayQualityMetrics ArrayExpress arrayQualityMetrics ArrayExpress
updated 8.9 years ago by 13k • written 9.0 years ago by ▴ 20
0
votes
5
replies
1.4k
views
XML package - 500 internal server error
GEOquery ArrayExpress GEOquery ArrayExpress
updated 9.8 years ago by 21k • written 9.8 years ago by ▴ 720
2
votes
0
replies
911
views
Fix for queryAE() in the ArrayExpress package
ArrayExpress ArrayExpress
9.9 years ago Ibrahim Emam ▴ 50
0
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0
replies
1.4k
views
Loading eSet.r objects from ArrayExpress
ArrayExpress ArrayExpress
9.9 years ago Ibrahim Emam ▴ 50
0
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0
replies
1.1k
views
Loading eSet.r objects from ArrayExpress
ArrayExpress ArrayExpress
10.0 years ago Mirza, Nasir ▴ 40
0
votes
2
replies
972
views
Error when using impute to get missing values
impute ArrayExpress impute ArrayExpress
updated 10.9 years ago by ★ 4.2k • written 10.9 years ago by ▴ 10
0
votes
1
reply
1.7k
views
Error by using gpr data with marray
limma marray ArrayExpress limma marray ArrayExpress
updated 10.9 years ago by 13k • written 10.9 years ago by ★ 12k
0
votes
2
replies
1.4k
views
Odd warning in simpleaffy, using quality control
cdf probe simpleaffy ArrayExpress cdf probe simpleaffy ArrayExpress
updated 10.9 years ago by ▴ 280 • written 11.0 years ago by ▴ 720
0
votes
0
replies
962
views
Odd warning in simpleaffy, using quality control
cdf simpleaffy ArrayExpress cdf simpleaffy ArrayExpress
11.0 years ago David Westergaard ▴ 280
0
votes
1
reply
1.1k
views
ArrayExpress error: unable to find an inherited method for function \"experimentData\", for signature \"try-error\"
ArrayExpress ArrayExpress
updated 11.2 years ago by ▴ 20 • written 11.2 years ago by ▴ 30
0
votes
1
reply
1.1k
views
ArrayExpress error: unable to find an inherited method for function \"experimentData\", for signature \"try-error\"
ArrayExpress ArrayExpress
updated 11.2 years ago by 6.6k • written 11.2 years ago by ★ 12k
0
votes
0
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808
views
Problem with limma for two-color factorial design - Coefficients not estimable
Microarray Normalization limma ArrayExpress Microarray Normalization limma ArrayExpress
11.3 years ago Stephen Turner ▴ 290
0
votes
0
replies
989
views
Bioinformatics course - October 2011 Registration is now open
Microarray Cancer biomaRt ArrayExpress genomes SANTA Microarray Cancer biomaRt genomes
11.3 years ago Claude Chelala ▴ 40
0
votes
5
replies
1.0k
views
Combining data from different versions of Illumina HumanHT-12 v3
Normalization probe limma safe ArrayExpress Normalization probe limma safe ArrayExpress
updated 11.8 years ago by ★ 3.5k • written 11.8 years ago by ▴ 220
0
votes
1
reply
1.2k
views
Combining data from different versions of Illumina HumanHT-12 v3
Normalization probe safe ArrayExpress Normalization probe safe ArrayExpress
updated 11.8 years ago by ★ 3.5k • written 11.8 years ago by ▴ 220
0
votes
14
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1.4k
views
Combining data from different versions of Illumina HumanHT-12 v3
probe limma ArrayExpress probe limma ArrayExpress
updated 11.8 years ago by ★ 3.5k • written 11.8 years ago by ▴ 220
0
votes
1
reply
662
views
magetab2bioc error
ArrayExpress ArrayExpress
updated 11.9 years ago by 13k • written 11.9 years ago by ▴ 10
0
votes
0
replies
772
views
limma design problem with a two color dataset
Microarray Normalization limma ArrayExpress Microarray Normalization limma ArrayExpress
11.9 years ago Gordon Smyth 47k
0
votes
0
replies
768
views
limma design problem with a two color dataset
Microarray Normalization limma ArrayExpress Microarray Normalization limma ArrayExpress
11.9 years ago Yong Li ▴ 190
0
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2
replies
1.8k
views
comparing HG-U219 data to HG-U133 data from public databases
Normalization convert ArrayExpress Normalization convert ArrayExpress
updated 11.9 years ago by ▴ 110 • written 11.9 years ago by ▴ 340
0
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0
replies
835
views
beadarray: how to create BeadStudio output after createBeadSummaryData
PROcess beadarray ArrayExpress PROcess beadarray ArrayExpress
12.1 years ago Cei Abreu-Goodger ▴ 830
50 results • Page 1 of 1
Recent ...
Replies
Comment: TCGA: clinical data and expression data by sharifnstu1203002m • 0
Hello, I am in the same problem. I downloaded "transcriptome profiling" data of TCGA by using the Bioconductor package. I get my gene expr…
Comment: How to normalize long-read RNA-seq data for comparison with short-reads by Jonathan Göke ▴ 40
Great to hear that you are using Bambu. Yes, I think that part of your question does not have one correct answer, there are many ways in wh…
Answer: Library sizes of miRNA sequencing data and TMM normalization with Edge-R by Gordon Smyth 47k
Choosing which samples to normalize together is not dependent on library size but rather on (1) whether the tissue samples are comparable a…
Comment: Atena package - error (new user) by lalanis1 • 0
Thanks a lot, Calvo. Will run my files with revised version soon! Best regards, Lalani
Comment: Nested paired design with covariates in limma by Gordon Smyth 47k
Please post a new question with enough detail to answer your question. If you want bespoke advance, then you need to post the details of yo…
Votes
Comment: How to normalize long-read RNA-seq data for comparison with short-reads
Answer: Library sizes of miRNA sequencing data and TMM normalization with Edge-R
C: Can't install TopmedPipeline Package
Comment: Question about GWASTools gdsSubset
Comment: How to normalize long-read RNA-seq data for comparison with short-reads
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