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Affy
•
reset
1
vote
2
replies
114
views
Problem with maplot {affy} method when using rma {affy} method output as its input
maplot_function
rma_function
ExpressionSet
MicroarrayData
affy
2 days ago
Mj.A.
• 0
0
votes
6
replies
1.2k
views
LIMMA : design (1, 2, 3, 3 ) , I got EXCITING results, what could be the logic, since i have 2 replicates for 3rd group only ?
affy
affy
updated 27 days ago by
Gordon Smyth
50k • written 18.9 years ago by
SAURIN
★ 1.1k
1
vote
3
replies
317
views
frma normalization
frmaTools
affy
updated 5 weeks ago by
James W. MacDonald
65k • written 5 weeks ago by
michelafrancesconi8
• 0
0
votes
11
replies
2.0k
views
globaltest question
Pathways
probe
affy
Pathways
probe
affy
written 17.6 years ago by
mike Ad.
▴ 30
0
votes
5
replies
2.0k
views
Normalizing Affy Almac Xcel Array Data from CEL files
Annotation
affy
oligo
ffpe
Annotation
affy
oligo
ffpe
written 10.2 years ago by
Guest User
★ 13k
0
votes
6
replies
2.0k
views
Error when Installing BioConductor Package ('affy')
Bioconductor
Install
affy
updated 4 months ago by
ATpoint
★ 4.0k • written 16 months ago by
laujihen
• 0
0
votes
2
replies
1.4k
views
Minimum expression threshold?
multtest
affy
multtest
affy
updated 7 months ago by
Amruta
• 0 • written 20.6 years ago by
Bob
▴ 20
0
votes
1
reply
552
views
affy package and SNP arrays
crlmm
hapmapsnp6
genomewidesnp6Crlmm
affy
updated 9 months ago by
Kevin Blighe
★ 3.9k • written 9 months ago by
Vincent J. Carey, Jr.
6.7k
2
votes
3
replies
842
views
Using gcrma() and using the t-test to compare single genes of interest for disease vs healthy comparison?
gcrma
CustomCDF
Affyhgu133aExpr
limma
affy
updated 11 months ago by
James W. MacDonald
65k • written 11 months ago by
Pratik Mehta
▴ 10
0
votes
3
replies
1.4k
views
*** caught segfault *** , cause 'memory not mapped'
affycoretools
FRMA
affyio
AffymetrixDataTestFiles
affy
updated 12 months ago by
James W. MacDonald
65k • written 12 months ago by
Seymoo
• 0
0
votes
1
reply
1.2k
views
limma: decideTests
affy
limma
affy
limma
updated 14 months ago by
Gordon Smyth
50k • written 16.3 years ago by
Al Ivens
▴ 270
0
votes
0
replies
1.6k
views
limma: decideTests
limma
probe
affy
16.2 years ago • updated 14 months ago
Gordon Smyth
50k
3
votes
9
replies
2.2k
views
Installing 'affy' package on MacOS M2 chip
nlme
affy
preprocessCore
updated 17 months ago by
James W. MacDonald
65k • written 17 months ago by
albrecht5698
• 0
1
vote
3
replies
1.1k
views
Microarray - Illumina Metadata
limma
GEO
MicroarrayData
affy
updated 2.5 years ago by
James W. MacDonald
65k • written 2.5 years ago by
RMP87
• 0
0
votes
0
replies
810
views
Reading Affymetrix Axiom files
affy
SNP
axiom
2.9 years ago
f.calboli
• 0
1
vote
3
replies
933
views
The eBayes function gives two p-values for each row
hgu133plus2.db
limma
DifferentialExpression
affy
updated 2.9 years ago by
Gordon Smyth
50k • written 2.9 years ago by
Caamp
• 0
2
votes
2
replies
953
views
Subscript out of bounds while normalising using affy::rma()
Normalization
affy
AffymetrixChip
2.9 years ago
geoffrey
▴ 10
0
votes
1
reply
1.4k
views
filtering on variance
probe
affy
probe
affy
updated 2.9 years ago by
Gordon Smyth
50k • written 16.3 years ago by
Dennis.Burian@faa.gov
▴ 90
0
votes
3
replies
3.7k
views
How do I choose between using affy or oligo package for preprocessing microarrays?
microarray
affymetrix microarrays
affy
oligo
updated 3.1 years ago by
James W. MacDonald
65k • written 7.2 years ago by
stevessheridan
• 0
0
votes
1
reply
1.9k
views
How to plot the RMA log2 normalised data from Affymetrix
log2
RMA
Affymetrix
affy
Normalization
updated 3.1 years ago by
Kevin Blighe
★ 3.9k • written 3.1 years ago by
Lara
• 0
1
vote
2
replies
1.0k
views
Getting error in collapsing the affy probs
affy
eset
updated 3.2 years ago by
James W. MacDonald
65k • written 3.2 years ago by
AZ
▴ 30
0
votes
3
replies
1.3k
views
ReadAffy does not take into account parameter sampleNames with phenoData object
affycoretools
ReadAffy
Biobase
phenoData
affy
updated 3.3 years ago by
James W. MacDonald
65k • written 3.3 years ago by
bastien_chassagnol
• 0
5
votes
8
replies
2.4k
views
how to annotate arrays
affy
annotation
microarray
oligo
updated 3.3 years ago by
James W. MacDonald
65k • written 8.7 years ago by
ben_cossins
• 0
1
vote
3
replies
2.3k
views
Annotating [HuGene-1_0-st] Affymetrix Human Gene 1.0 ST Array [transcript (gene) version] file
microarray
annotation
affy
3.5 years ago
kiera.lee
▴ 10
4
votes
7
replies
1.4k
views
Limma sample groups
microarray
limma
affy
cancer
updated 3.5 years ago by
Gordon Smyth
50k • written 3.5 years ago by
nancy.nassar1590
• 0
0
votes
0
replies
623
views
Probe Design questions
probe
affy
3.5 years ago
henry1995910343
• 0
0
votes
2
replies
999
views
What is the best way to do annotation of the transcript clusters and filter in HTA 2.0
HTA2.0
microarray
affy
r
3.5 years ago
Marco_aurelio
• 0
0
votes
6
replies
1.0k
views
Problems loading latest Version of S4Vectors
affy
3.6 years ago
ianrector97
• 0
5
votes
9
replies
2.9k
views
Pipeline to analyzing Microarray data set( GSE files from NCBI GEO)
microarray
affy
updated 3.8 years ago by
Kevin Blighe
★ 3.9k • written 3.8 years ago by
adR
▴ 30
0
votes
2
replies
958
views
How to process triplicate cel data?
microarray
affy
cel
drugmatrix
updated 3.8 years ago by
Gordon Smyth
50k • written 3.8 years ago by
peirinl
• 0
6
votes
3
replies
1.3k
views
GEOquery: preprocessing log of imported data
GEOquery
microarray
lumi
affy
limma
updated 3.8 years ago by
Sean Davis
21k • written 3.8 years ago by
fabian
▴ 40
2
votes
7
replies
1.2k
views
Affycoretools package, HTA 2.0 annotation for non-coding RNA
affy
rna
hta2.0
r
updated 3.8 years ago by
James W. MacDonald
65k • written 3.8 years ago by
Marco_aurelio
• 0
1
vote
1
reply
606
views
Microarray Workflow - NA error
limma
affy
updated 3.9 years ago by
Kevin Blighe
★ 3.9k • written 3.9 years ago by
ammasakshay
• 0
3
votes
4
replies
998
views
gcrma problem with make.cdf.package
gcrma
make.cdf.package
affy
updated 3.9 years ago by
James W. MacDonald
65k • written 3.9 years ago by
Osvaldo
▴ 40
0
votes
1
reply
895
views
Problem analyzing Affymetrix Microarray data from Clariom S Mouse
affy
oligo
Clariom S Mouse
microarray
updated 4.0 years ago by
James W. MacDonald
65k • written 4.0 years ago by
lsbew
• 0
0
votes
1
reply
567
views
Affymetrix microarray - Limma on timepoint experiment, how to make the design and contrast matrix ?
limma
R
microarray
timepoint
affy
updated 4.0 years ago by
shepherl
3.8k • written 4.0 years ago by
ashwinmenon1994
• 0
1
vote
1
reply
998
views
Trouble using affy library
software error
R
microarray
affy
updated 4.0 years ago by
James W. MacDonald
65k • written 4.0 years ago by
adam_casas
• 0
1
vote
1
reply
1.6k
views
How to annotate the Affymetrix data HTA-2.0 with oligo
annotation
affy
normalization
updated 4.1 years ago by
Guido Hooiveld
★ 3.9k • written 4.1 years ago by
sheikhbeigali
• 0
0
votes
2
replies
1.2k
views
3' microarray data using Affy - can't find cdf file, please help!
Affy
microarray
cdf
updated 4.3 years ago by
James W. MacDonald
65k • written 4.3 years ago by
meganlloyd
• 0
0
votes
1
reply
835
views
limma Multi-level Experiments - Main effect test
limma
microarray
affy
updated 4.4 years ago by
Gordon Smyth
50k • written 4.4 years ago by
cyusufd
• 0
0
votes
2
replies
999
views
Ask for help on the preprocessing of GEO microarray data with Oligo and affy package
affy
rma
frma
oligo
updated 4.4 years ago by
James W. MacDonald
65k • written 4.4 years ago by
chziy429
• 0
3
votes
2
replies
843
views
issue with hgu95acdf package
affy
updated 4.4 years ago by
Martin Morgan
25k • written 4.4 years ago by
alisher.jannyyev
• 0
0
votes
1
reply
897
views
Still Not Recognizing CDF
affy
CDF
4.4 years ago
ekl
• 0
1
vote
5
replies
1.7k
views
CDf files in R
affy
CDF
updated 4.4 years ago by
James W. MacDonald
65k • written 4.4 years ago by
ekl
• 0
1
vote
2
replies
928
views
What should I do with the package:org.Hs.eg.db?
microarray
affy
updated 4.4 years ago by
Martin Morgan
25k • written 4.4 years ago by
2426986765
▴ 10
2
votes
4
replies
1.4k
views
Using function select
Affy
updated 4.4 years ago by
James W. MacDonald
65k • written 4.4 years ago by
ekl
• 0
3
votes
8
replies
2.4k
views
Error: 'exprs<-' is not an exported object from 'namespace:affy'
affy
limma
piano
updated 4.5 years ago by
James W. MacDonald
65k • written 4.5 years ago by
abolfazl.nikakhtar
• 0
0
votes
0
replies
711
views
Different versions of r/affy combination may lead to differences in rma normalization results
microarray
affy
rma normalization
affy package
4.6 years ago
yshuang
• 0
1
vote
2
replies
1.9k
views
CDF not found
Affy
microarray
updated 4.6 years ago by
Guido Hooiveld
★ 3.9k • written 4.6 years ago by
ijvechetti
▴ 10
0
votes
0
replies
733
views
Fold Change Calculation in edge package
edge
microarray
limma
affy
4.8 years ago
soumyab.g
▴ 10
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Yes that is correct
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