Showing : arrayexpress • reset
2
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2
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788
views
Simple queryAE command returning "Error: 1: Document is empty"
queryAE ArrayExpress
17 months ago alekeuro ▴ 10
4
votes
5
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1.9k
views
time course microarray data ArrayExpress database
R GillespieColin ArrayExpress import TimeSeriesExperiment
updated 6 months ago by ▴ 40 • written 18 months ago by ▴ 20
1
vote
2
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995
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limma - removing samples?
ArrayExpress limma arrays
2.9 years ago RMP87 • 0
4
votes
2
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1.3k
views
TargetsFile. Where it is?
Limma ArrayExpress GEO
updated 3.0 years ago by 65k • written 3.0 years ago by • 0
3
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2
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1.1k
views
NChannelSet --> eSet/expressionSet ? How to transform?
ExpressionData ArrayExpress
updated 3.0 years ago by 50k • written 3.0 years ago by • 0
1
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1
reply
1.1k
views
Error in read.metharray(basenames = files, extended = extended, verbose = verbose, : The following specified files do not exist:201172580052_R02C…
ArrayExpress methylationArrayAnalysis
updated 3.5 years ago by 65k • written 3.5 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
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0
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793
views
ArrayExpress error when creating rawset
ArrayExpress arrayexpress
4.2 years ago Majeed MJ • 0
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
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
6
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5
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3.1k
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
1
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4
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1.9k
views
Need help loading gene expression data into R using either ArrayExpress or GEOquery R packages
arrayexpress geoquery geneexpression
updated 6.0 years ago by 21k • written 6.0 years ago by ▴ 10
1
vote
1
reply
1.1k
views
Agilent Data Normalization Result
limma agilent arrayexpress
updated 6.1 years ago by 50k • written 6.1 years ago by • 0
0
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0
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960
views
Error in building expression set for ArrayExpress
microarray expressionset arrayexpress bioconductor r
6.1 years ago rf • 0
0
votes
0
replies
814
views
Why procset(files, procol) requires exactly one column name?
ArrayExpress
6.1 years ago klv2706w ▴ 10
0
votes
2
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1.6k
views
AffyBatch and ArrayExpress
arrayexpress affy bugs
updated 6.1 years ago by 65k • written 6.1 years ago by ▴ 230
0
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1
reply
1.3k
views
Downloading Twochannel microarray data from ArrayExpress
arrayexpress twochannel microarray
6.5 years ago Andy91 ▴ 60
3
votes
6
replies
2.8k
views
function getAE from ArrayExpress needs update because EBI has switched to https
arrayexpress xml rcurl http EBI
updated 6.5 years ago by ★ 13k • written 6.6 years ago by ▴ 610
4
votes
1
reply
1.6k
views
Mismatched ArrayExpress microarray annotation package
arrayexpress ArrayExpress hthgu133a.db
6.8 years ago sandmann.t ▴ 70
0
votes
1
reply
1.3k
views
ArrayExpress fails with experiments without array data but could still return parsed .idf and .sdrf
ArrayExpress
7.2 years ago Andrew_McDavid ▴ 270
2
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1
reply
1.2k
views
Output of ArrayExpress() function
oligo oligoclasses arrayexpress
updated 7.2 years ago by 65k • written 7.2 years ago by • 0
2
votes
3
replies
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
0
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0
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1.0k
views
error while using queryAE function for human transcription profiling experiments
ArrayExpress microarray R
7.7 years ago deepue ▴ 10
0
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0
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1.3k
views
Export expressionSet to ArrayExpress "processed data"
expressionset simpleaffy arrayexpress tsv
7.7 years ago Steffen Neumann ▴ 30
0
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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
0
votes
1
reply
1.9k
views
Error while reading ArrayExpress dataset
arrayexpress
updated 8.8 years ago by 65k • written 8.8 years ago by • 0
0
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3
replies
1.4k
views
Differential Expression of c.diff. microarray
arrayexpress differential expression
9.0 years ago SSK ▴ 10
0
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1
reply
1.3k
views
ArrayExpress (finding differential expression using bioconductor+C)
arrayexpress differential expression
9.0 years ago SSK ▴ 10
0
votes
1
reply
1.6k
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 10.1 years ago by 65k • written 10.1 years ago by ★ 13k
0
votes
1
reply
1.5k
views
Problem with NChannelSet objects using Agilent Data with arrayQualityMetrics package
arrayQualityMetrics ArrayExpress arrayQualityMetrics ArrayExpress
updated 10.1 years ago by ★ 13k • written 10.2 years ago by ▴ 20
0
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5
replies
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
2
votes
0
replies
1.2k
views
Fix for queryAE() in the ArrayExpress package
ArrayExpress ArrayExpress
11.1 years ago Ibrahim Emam ▴ 50
0
votes
0
replies
1.7k
views
Loading eSet.r objects from ArrayExpress
ArrayExpress ArrayExpress
11.1 years ago Ibrahim Emam ▴ 50
0
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0
replies
1.3k
views
Loading eSet.r objects from ArrayExpress
ArrayExpress ArrayExpress
11.2 years ago Mirza, Nasir ▴ 40
0
votes
2
replies
1.3k
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
votes
1
reply
2.0k
views
Error by using gpr data with marray
limma marray ArrayExpress limma marray ArrayExpress
updated 12.1 years ago by ★ 13k • written 12.1 years ago by ★ 13k
0
votes
2
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1.8k
views
Odd warning in simpleaffy, using quality control
cdf probe simpleaffy ArrayExpress cdf probe simpleaffy ArrayExpress
updated 12.1 years ago by ▴ 280 • written 12.2 years ago by ▴ 720
0
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0
replies
1.2k
views
Odd warning in simpleaffy, using quality control
cdf simpleaffy ArrayExpress cdf simpleaffy ArrayExpress
12.2 years ago David Westergaard ▴ 280
0
votes
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
1.4k
views
ArrayExpress error: unable to find an inherited method for function \"experimentData\", for signature \"try-error\"
ArrayExpress ArrayExpress
updated 12.4 years ago by 6.7k • written 12.4 years ago by ★ 13k
0
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0
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1.1k
views
Problem with limma for two-color factorial design - Coefficients not estimable
Microarray Normalization limma ArrayExpress Microarray Normalization limma ArrayExpress
12.5 years ago Stephen Turner ▴ 290
0
votes
0
replies
1.3k
views
Bioinformatics course - October 2011 Registration is now open
Microarray Cancer biomaRt ArrayExpress genomes SANTA Microarray Cancer biomaRt genomes
12.5 years ago Claude Chelala ▴ 40
0
votes
5
replies
1.5k
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
0
votes
1
reply
1.5k
views
Combining data from different versions of Illumina HumanHT-12 v3
Normalization probe safe ArrayExpress Normalization probe safe ArrayExpress
updated 13.0 years ago by ★ 3.6k • written 13.0 years ago by ▴ 220
0
votes
14
replies
2.2k
views
Combining data from different versions of Illumina HumanHT-12 v3
probe limma ArrayExpress probe limma ArrayExpress
updated 13.0 years ago by ★ 3.6k • written 13.0 years ago by ▴ 220
0
votes
1
reply
970
views
magetab2bioc error
ArrayExpress ArrayExpress
updated 13.1 years ago by ★ 13k • written 13.1 years ago by ▴ 10
0
votes
0
replies
1.0k
views
limma design problem with a two color dataset
Microarray Normalization limma ArrayExpress Microarray Normalization limma ArrayExpress
13.1 years ago Gordon Smyth 50k
0
votes
0
replies
1.0k
views
limma design problem with a two color dataset
Microarray Normalization limma ArrayExpress Microarray Normalization limma ArrayExpress
13.1 years ago Yong Li ▴ 190
0
votes
2
replies
2.3k
views
comparing HG-U219 data to HG-U133 data from public databases
Normalization convert ArrayExpress Normalization convert ArrayExpress
updated 13.1 years ago by ▴ 110 • written 13.1 years ago by ▴ 340
0
votes
0
replies
1.1k
views
beadarray: how to create BeadStudio output after createBeadSummaryData
PROcess beadarray ArrayExpress PROcess beadarray ArrayExpress
13.3 years ago Cei Abreu-Goodger ▴ 830
50 results • Page 1 of 1
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Comment: The difference when using Limma compare between 3 conditions vs 2 conditions by Robert Castelo ★ 3.2k
Hi, your `c2` object storing all the gene sets is probably a `list` object, where element names are the names of the pathways given by MSig…
Comment: Differential peaks that were not identified in diffbind were identified in diseq by lonn • 0
I tried the default normalization and got similar results as above. Perhaps I need to try identifying the difference peak without using dif…
Answer: Cannabis and KEGGgraph by deeenes ▴ 30
Hello, I'm a developer of the `OmnipathR` package, and I wrote [a function][1] to access certain KEGG data: library(OmnipathR) cs…
Answer: RNAseq:Technical replicates from different batches by Gordon Smyth 50k
I am not entirely clear what you mean by "technical" replicates in this case. Are they resequencing of the same RNA samples or are they fre…
Comment: DMR.Plot shows error "Error in simpleLoess(y, x, w, span, degree = degree, param by russ.bainer ▴ 10
Hi, I'm hitting this too. As far as I can tell my DataTrack is fine, but perhaps I am missing something. Notably the same code works on o…
Votes
Installing/switching between versions of R/Rstudio/Bioconductor on personal machine (Linux | Ubuntu)
A: Docker container with bioconductor and devtools
Answer: OrgDb for maize
Comment: significant difference of p-values with dream() after updating VariancePartition
How to tell and visualize up/down regulation of pathways from clusterprofiler gsea output
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Scholar to Robert Castelo ★ 3.2k
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