Showing : ArrayExpress • reset
2
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1
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536
views
Using Affymetrix Custom Array
ArrayExpress makecdfenv AffymetrixChip gcrma GeneExpression
updated 13 months ago by 68k • written 13 months ago by • 0
0
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3
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934
views
Assist me in determining whether the analysis process using the limma package has been executed correctly.
GEOquery ArrayExpress limma DifferentialExpression
updated 19 months ago by 68k • written 19 months ago by • 0
2
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2
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1.3k
views
Simple queryAE command returning "Error: 1: Document is empty"
queryAE ArrayExpress
3.1 years ago alekeuro ▴ 10
4
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5
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2.8k
views
time course microarray data ArrayExpress database
R GillespieColin ArrayExpress import TimeSeriesExperiment
updated 2.2 years ago by ▴ 40 • written 3.2 years ago by ▴ 20
2
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2
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1.6k
views
limma - removing samples?
ArrayExpress limma arrays
4.6 years ago RMP87 • 0
4
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2
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1.8k
views
TargetsFile. Where it is?
Limma ArrayExpress GEO
updated 4.7 years ago by 68k • written 4.7 years ago by • 0
3
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2
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1.7k
views
NChannelSet --> eSet/expressionSet ? How to transform?
ExpressionData ArrayExpress
updated 4.7 years ago by 53k • written 4.7 years ago by • 0
1
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1
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1.7k
views
Error in read.metharray(basenames = files, extended = extended, verbose = verbose, : The following specified files do not exist:201172580052_R02C…
ArrayExpress methylationArrayAnalysis
updated 5.1 years ago by 68k • written 5.1 years ago by • 0
0
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2
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1.8k
views
Regarding ArrayExpress package
microarray arrayexpress
updated 5.2 years ago by 68k • written 5.2 years ago by • 0
0
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0
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1.3k
views
ArrayExpress error when creating rawset
ArrayExpress arrayexpress
5.8 years ago Majeed MJ • 0
3
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4
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4.1k
views
lm.fit incompatible dimensions
oligo arrayexpress limma
updated 5.8 years ago by • 0 • written 6.9 years ago by • 0
2
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3
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2.2k
views
Could not access the Bioconductor repository
bioconductor proxy arrayexpress
updated 6.9 years ago by 68k • written 6.9 years ago by • 0
6
votes
5
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4.4k
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 7.2 years ago by 53k • written 7.2 years ago by ▴ 840
1
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4
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3.0k
views
Need help loading gene expression data into R using either ArrayExpress or GEOquery R packages
arrayexpress geoquery geneexpression
updated 7.7 years ago by 21k • written 7.7 years ago by ▴ 10
1
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1
reply
1.5k
views
Agilent Data Normalization Result
limma agilent arrayexpress
updated 7.7 years ago by 53k • written 7.7 years ago by • 0
0
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0
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1.4k
views
Error in building expression set for ArrayExpress
microarray expressionset arrayexpress bioconductor r
7.8 years ago rf • 0
0
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0
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1.2k
views
Why procset(files, procol) requires exactly one column name?
ArrayExpress
7.8 years ago klv2706w ▴ 10
0
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2
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2.1k
views
AffyBatch and ArrayExpress
arrayexpress affy bugs
updated 7.8 years ago by 68k • written 7.8 years ago by ▴ 230
0
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1
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1.9k
views
Downloading Twochannel microarray data from ArrayExpress
arrayexpress twochannel microarray
8.1 years ago Andy91 ▴ 60
3
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6
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3.8k
views
function getAE from ArrayExpress needs update because EBI has switched to https
arrayexpress xml rcurl http EBI
updated 8.2 years ago by ★ 13k • written 8.2 years ago by ▴ 610
4
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1
reply
2.2k
views
Mismatched ArrayExpress microarray annotation package
arrayexpress ArrayExpress hthgu133a.db
8.5 years ago sandmann.t ▴ 70
0
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1
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1.8k
views
ArrayExpress fails with experiments without array data but could still return parsed .idf and .sdrf
ArrayExpress
8.9 years ago Andrew_McDavid ▴ 280
2
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1
reply
1.6k
views
Output of ArrayExpress() function
oligo oligoclasses arrayexpress
updated 8.9 years ago by 68k • written 8.9 years ago by • 0
2
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3
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3.3k
views
ArrayExpress unable to find raw data: "Experiment has no raw files available"
arrayexpress
updated 9.1 years ago by ▴ 20 • written 9.1 years ago by ▴ 180
0
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0
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1.4k
views
error while using queryAE function for human transcription profiling experiments
ArrayExpress microarray R
9.3 years ago deepue ▴ 10
0
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0
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1.8k
views
Export expressionSet to ArrayExpress "processed data"
expressionset simpleaffy arrayexpress tsv
9.4 years ago Steffen Neumann ▴ 30
0
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5
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2.6k
views
arrayExpress: problem running code from the vignette
arrayexpress
9.6 years ago kevin.rue ▴ 350
0
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1
reply
2.3k
views
Error while reading ArrayExpress dataset
arrayexpress
updated 10.5 years ago by 68k • written 10.5 years ago by • 0
0
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3
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1.8k
views
Differential Expression of c.diff. microarray
arrayexpress differential expression
10.6 years ago SSK ▴ 10
0
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1
reply
1.7k
views
ArrayExpress (finding differential expression using bioconductor+C)
arrayexpress differential expression
10.6 years ago SSK ▴ 10
0
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1
reply
2.1k
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 11.7 years ago by 68k • written 11.7 years ago by ★ 13k
0
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1
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1.8k
views
Problem with NChannelSet objects using Agilent Data with arrayQualityMetrics package
arrayQualityMetrics ArrayExpress arrayQualityMetrics ArrayExpress
updated 11.8 years ago by ★ 13k • written 11.8 years ago by ▴ 20
0
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5
replies
2.5k
views
XML package - 500 internal server error
GEOquery ArrayExpress GEOquery ArrayExpress
updated 12.6 years ago by 21k • written 12.6 years ago by ▴ 740
2
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0
replies
1.5k
views
Fix for queryAE() in the ArrayExpress package
ArrayExpress ArrayExpress
12.8 years ago Ibrahim Emam ▴ 50
0
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0
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2.0k
views
Loading eSet.r objects from ArrayExpress
ArrayExpress ArrayExpress
12.8 years ago Ibrahim Emam ▴ 50
0
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0
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1.6k
views
Loading eSet.r objects from ArrayExpress
ArrayExpress ArrayExpress
12.8 years ago Mirza, Nasir ▴ 40
0
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2
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1.8k
views
Error when using impute to get missing values
impute ArrayExpress impute ArrayExpress
updated 13.7 years ago by ★ 4.2k • written 13.7 years ago by ▴ 10
0
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1
reply
2.4k
views
Error by using gpr data with marray
limma marray ArrayExpress limma marray ArrayExpress
updated 13.8 years ago by ★ 13k • written 13.8 years ago by ★ 13k
0
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2
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2.3k
views
Odd warning in simpleaffy, using quality control
cdf probe simpleaffy ArrayExpress cdf probe simpleaffy ArrayExpress
updated 13.8 years ago by ▴ 280 • written 13.8 years ago by ▴ 740
0
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0
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1.5k
views
Odd warning in simpleaffy, using quality control
cdf simpleaffy ArrayExpress cdf simpleaffy ArrayExpress
13.8 years ago David Westergaard ▴ 280
0
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1
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1.8k
views
ArrayExpress error: unable to find an inherited method for function \"experimentData\", for signature \"try-error\"
ArrayExpress ArrayExpress
updated 14.1 years ago by ▴ 20 • written 14.1 years ago by ▴ 30
0
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1
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1.8k
views
ArrayExpress error: unable to find an inherited method for function \"experimentData\", for signature \"try-error\"
ArrayExpress ArrayExpress
updated 14.1 years ago by 6.7k • written 14.1 years ago by ★ 13k
0
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0
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1.5k
views
Problem with limma for two-color factorial design - Coefficients not estimable
Microarray Normalization limma ArrayExpress Microarray Normalization limma ArrayExpress
14.2 years ago Stephen Turner ▴ 290
0
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0
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1.6k
views
Bioinformatics course - October 2011 Registration is now open
Microarray Cancer biomaRt ArrayExpress genomes SANTA Microarray Cancer biomaRt genomes
14.2 years ago Claude Chelala ▴ 40
0
votes
5
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2.2k
views
Combining data from different versions of Illumina HumanHT-12 v3
Normalization probe limma safe ArrayExpress Normalization probe limma safe ArrayExpress
updated 14.6 years ago by ★ 3.6k • written 14.6 years ago by ▴ 220
0
votes
1
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2.0k
views
Combining data from different versions of Illumina HumanHT-12 v3
Normalization probe safe ArrayExpress Normalization probe safe ArrayExpress
updated 14.7 years ago by ★ 3.6k • written 14.7 years ago by ▴ 220
0
votes
14
replies
3.3k
views
Combining data from different versions of Illumina HumanHT-12 v3
probe limma ArrayExpress probe limma ArrayExpress
updated 14.7 years ago by ★ 3.6k • written 14.7 years ago by ▴ 220
0
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1
reply
1.3k
views
magetab2bioc error
ArrayExpress ArrayExpress
updated 14.7 years ago by ★ 13k • written 14.7 years ago by ▴ 10
0
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0
replies
1.3k
views
limma design problem with a two color dataset
Microarray Normalization limma ArrayExpress Microarray Normalization limma ArrayExpress
14.7 years ago Gordon Smyth 53k
0
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0
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1.3k
views
limma design problem with a two color dataset
Microarray Normalization limma ArrayExpress Microarray Normalization limma ArrayExpress
14.7 years ago Yong Li ▴ 190
101 results • Page 1 of 3
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Comment: Bioinformatician at the Lausanne University Hospital by eja.ger.m • 0
For individuals looking to improve communication and collaboration in demanding medical or research environments like the Genetic Medicine …
Answer: NUPOP usage by shepherl 4.2k
You should read the documentation in the package especially the package vignette https://bioconductor.org/packages/release/bioc/html/NuPoP.…
Comment: How can I correctly use phyloseq with Docker? by fnfgame • 0
In a rocker image, this error usually means the Bioconductor install happened as root but the runtime library paths used by the shiny user …
Comment: DECIPHER DesignProbes unable to design FISH-probes by Erik Wright ▴ 150
Are the sequences aligned (i.e., the same width) before running `TileSeqs()`?
Comment: BiocParallel (and DESeq2) - wrong args for environment subassignment by Michael Love 43k
BTW, I tested with no issue on MacOS ARM on our previous github issue.
Votes
C: DESeq2 Following RSEM
Upcoming Ensembl API and data access changes - new blog post available
Comment: Highly similar RNA-seq samples in PCA - pooling or technical duplication?
Answer: Large logFC but somewhat high FDR
Comment: upstream git branches of bioc-release
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