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Showing :
Oligo
•
reset
6
votes
22
replies
3.8k
views
Oligo package: paCalls questions
microarray
oligo
updated 8.8 years ago by
cstrato
★ 3.9k • written 8.8 years ago by
whyuen
▴ 20
0
votes
8
replies
1.6k
views
oligo on R 2.4.1?
GO
Survival
annotate
genefilter
affy
affydata
matchprobes
affyQCReport
affyio
oligo
GO
updated 17.1 years ago by
Seth Falcon
★ 7.4k • written 17.1 years ago by
Jenny Drnevich
★ 2.2k
0
votes
7
replies
1.5k
views
presence/absence call using oligo array?
Microarray
oligo
Microarray
oligo
18.2 years ago
xpeng
▴ 60
2
votes
14
replies
3.4k
views
Annotation of Affy Porcine Gene 1.0 ST array data
limma
oligo
annotation
updated 9.0 years ago by
alakatos
▴ 130 • written 9.2 years ago by
aminbau14
• 0
3
votes
4
replies
3.0k
views
pd.huex.1.0.st.v2 package doubt
oligo
exon array analysis
updated 8.8 years ago by
Marc Carlson
★ 7.2k • written 8.8 years ago by
Elena Serrano
▴ 30
0
votes
6
replies
1.6k
views
Normalization between arrays for common reference, time course and direct two color designs
Normalization
limma
oligo
Normalization
limma
oligo
17.3 years ago
Jenny Drnevich
★ 2.2k
0
votes
15
replies
2.5k
views
PreFiltering probe in microarray analysis
Microarray
limma
oligo
Microarray
limma
oligo
updated 12.8 years ago by
wxu@msi.umn.edu
▴ 220 • written 12.8 years ago by
Stephanie PIERSON
▴ 30
0
votes
9
replies
1.5k
views
RE: Advice on print-tip normalization
Cancer
probe
marray
oligo
Cancer
probe
marray
oligo
updated 19.5 years ago by
Gene Cutler
▴ 50 • written 19.5 years ago by
Mark Reimers
▴ 70
0
votes
10
replies
1.8k
views
One-color spotted microarrays analysis
Microarray
Normalization
oligo
Microarray
Normalization
oligo
updated 14.8 years ago by
Wolfgang Huber
★ 13k • written 14.9 years ago by
Pier-Luc Poulin
▴ 30
0
votes
5
replies
2.6k
views
Issues about how to filter and annotate the MoGene-2_0-st and MoEx-1_0-st-v1 array probe sets
Annotation
probe
annotate
annaffy
oligo
ReportingTools
Annotation
probe
annotate
annaffy
updated 9.8 years ago by
Jason Hackney
▴ 160 • written 9.8 years ago by
James W. MacDonald
65k
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
4
replies
1.5k
views
memory error on unix
oligo
oligo
updated 16.8 years ago by
Brandon Higgs
▴ 30 • written 16.8 years ago by
Beth Wilmot
▴ 120
0
votes
5
replies
1.4k
views
Development of GCRMA-like methods
gcrma
oligo
gcrma
oligo
20.2 years ago
Matthew Hannah
▴ 940
0
votes
3
replies
1.1k
views
makePdInfoPackage in preparation for RMA with oligo on Nimblegen Expression Arrays
Annotation
oligo
Annotation
oligo
14.7 years ago
Jack Schonbrun
▴ 50
0
votes
3
replies
986
views
one-color oligo methods
Normalization
oligo
Normalization
oligo
updated 21.2 years ago by
Wolfgang Huber
★ 13k • written 21.2 years ago by
Dick Beyer
★ 1.4k
3
votes
4
replies
2.9k
views
lm.fit incompatible dimensions
oligo
arrayexpress
limma
updated 4.1 years ago by
Anna Woods
• 0 • written 5.2 years ago by
maxininfa
• 0
1
vote
8
replies
8.6k
views
"Subscript out of bounds" erorr during microarray analysis with Limma
oligo
limma
bioconductor
affymetrix microarrays
8.7 years ago
Claudia
▴ 10
2
votes
16
replies
2.7k
views
Possible ways of performing non-specific intensity filtering on Perfect-match only affymetrix array
oligo
DABG
non-specific filtering
primeview
8.9 years ago
svlachavas
▴ 830
1
vote
5
replies
2.4k
views
Affymetrix Rat Transcriptome Array (Clariom D) annotation
annotation
microarray
pdinfobuilder
oligo
7.5 years ago
Ed D
• 0
0
votes
4
replies
2.1k
views
Reading Affymetrix data from pd.hugene.2.0.st using oligo/affy
affy
oligo
updated 8.1 years ago by
Biologist
▴ 110 • written 9.2 years ago by
WATSON Mick
▴ 50
3
votes
5
replies
1.6k
views
Farms/Call.INI using oligo package?
probe
affy
oligo
farms
probe
affy
oligo
farms
updated 10.4 years ago by
Djork Clevert
▴ 210 • written 10.4 years ago by
Fraser Sim
▴ 270
3
votes
9
replies
4.2k
views
Confused by the probe design of Affymetrix Human Transcriptome Array (HTA 2.0)
microarray
normalization
oligo
updated 8.4 years ago by
burchard
• 0 • written 9.4 years ago by
tangboyun
▴ 30
10
votes
13
replies
4.2k
views
Trouble identifying differentially expressed genes on Affymetrix Human Gene 2.0.ST using R with oligo and limma package
R
limma
oligo
differential gene expression
affymetrix microarrays
updated 8.7 years ago by
tree-ski
• 0 • written 8.7 years ago by
dennis.oezcelik
▴ 10
6
votes
8
replies
2.2k
views
Gene level analysis of Affymetrix GeneChip Mouse Exon Arrays
affy
aroma.affymetrix
exon array
xps
oligo
6.7 years ago
Gordon Smyth
50k
0
votes
2
replies
1.7k
views
differences among pd.mogene.1.0.st.v1, mogene10sttranscriptcluster.db and mogene10stprobeset.db
Annotation
oligo
Annotation
oligo
updated 11.5 years ago by
James W. MacDonald
65k • written 11.5 years ago by
Javier Pérez Florido
▴ 840
0
votes
4
replies
4.3k
views
An error in oligo: All the CEL files must be of the same type??
BiocViews
Annotation
Organism
biocViews
oligo
BiocViews
BiocViews
Annotation
Organism
updated 12.8 years ago by
Benilton Carvalho
★ 4.3k • written 12.8 years ago by
Setsuko Sahara
▴ 20
0
votes
2
replies
911
views
Nimblegen data analysis
GO
cdf
affy
oligo
GO
cdf
affy
oligo
updated 16.9 years ago by
Todd Richmond
▴ 140 • written 16.9 years ago by
Jenny Drnevich
★ 2.2k
0
votes
12
replies
5.1k
views
Have troubles with finding Annotations for Bovine and Rhesus\' platforms
Microarray
GO
oligo
AnnotationForge
Microarray
GO
oligo
AnnotationForge
11.1 years ago
James W. MacDonald
65k
0
votes
3
replies
1.9k
views
oligo package attaching phenodata for HuGene2.0 ST array
oligo
oligo
updated 10.7 years ago by
James W. MacDonald
65k • written 10.7 years ago by
Guest User
★ 13k
0
votes
11
replies
3.4k
views
SNP6 data to VCF
SNP
oligo
ASSIGN
SNP
oligo
ASSIGN
updated 5.6 years ago by
giulio.genovese
• 0 • written 12.1 years ago by
Sean Davis
21k
0
votes
8
replies
1.5k
views
crlmm warning
oligo
crlmm
oligo
crlmm
updated 17.1 years ago by
Benilton Carvalho
★ 4.3k • written 17.1 years ago by
Morten Mattingsdal
▴ 190
0
votes
5
replies
1.2k
views
Looking for R package for Nimblegen expression data
oligo
makePlatformDesign
oligo
makePlatformDesign
17.2 years ago
Xinxia Peng
▴ 120
0
votes
3
replies
1.0k
views
Fwd: pmStrand() in oligo (version...)
SNP
oligo
SNP
oligo
16.8 years ago
Benilton Carvalho
★ 4.3k
3
votes
4
replies
1.7k
views
cause 'memory not mapped' when use oligo
oligo
oligoClasses
oligo
oligoClasses
updated 11.5 years ago by
Benilton Carvalho
▴ 50 • written 11.5 years ago by
Ou, Jianhong
★ 1.3k
0
votes
17
replies
8.1k
views
Analysis of Affymetrix Mouse Gene 2.0 ST arrays
Annotation
Normalization
GO
PROcess
oligo
Annotation
Normalization
GO
PROcess
oligo
updated 11.1 years ago by
James W. MacDonald
65k • written 11.1 years ago by
Kamila Naxerova
▴ 100
0
votes
2
replies
1.7k
views
PLANdbAffy + Alternative Exon Annotation +XPS, aroma, oligo, RMAExpress
Annotation
cdf
probe
affy
oligo
xps
DOSE
Annotation
cdf
probe
affy
oligo
xps
DOSE
updated 13.3 years ago by
Benilton Carvalho
★ 4.3k • written 13.3 years ago by
branislav misovic
▴ 120
0
votes
3
replies
1.2k
views
Spatial Correction
SNP
Normalization
affy
oligo
SNP
Normalization
affy
oligo
updated 17.5 years ago by
Matthew Lyon
▴ 120 • written 17.5 years ago by
Justin Borevitz
▴ 170
0
votes
8
replies
1.9k
views
pdInfoBuilder: invalid class object ("ScalarCharacter")
Annotation
oligo
pdInfoBuilder
Annotation
oligo
pdInfoBuilder
updated 14.0 years ago by
Vincent J. Carey, Jr.
6.7k • written 14.0 years ago by
Guido Hooiveld
★ 3.9k
0
votes
2
replies
1.5k
views
vsn and oligo (or xps?) packages for GeneST expression arrays
vsn
oligo
xps
vsn
oligo
xps
updated 14.2 years ago by
cstrato
★ 3.9k • written 14.2 years ago by
Tim Rayner
▴ 270
0
votes
2
replies
1.5k
views
FW: PLANdbAffy + Alternative Exon Annotation +XPS, aroma, oligo, RMAExpress
Annotation
cdf
probe
affy
oligo
xps
DOSE
Annotation
cdf
probe
affy
oligo
xps
DOSE
updated 13.3 years ago by
branislav misovic
▴ 120 • written 13.3 years ago by
Ramil Nurtdinov
▴ 10
0
votes
3
replies
1.2k
views
oligo package cannot read files when gdata is loaded
Biobase
oligo
Biobase
oligo
14.2 years ago
Benilton Carvalho
★ 4.3k
0
votes
2
replies
825
views
spot weight in limma
oligo
ASSIGN
oligo
ASSIGN
19.4 years ago
Ren Na
▴ 250
0
votes
3
replies
1.5k
views
[MAANOVA] Warnings in fitmaanova & information request
maanova
oligo
maanova
oligo
14.1 years ago
boczniak767
▴ 720
0
votes
2
replies
1.3k
views
Affymetrix Gene Chip Normalization
Normalization
affy
oligo
xps
Normalization
affy
oligo
xps
updated 12.8 years ago by
cstrato
★ 3.9k • written 12.8 years ago by
Bin Ye
▴ 30
0
votes
4
replies
1.0k
views
VSN exclusion of probes
probe
vsn
oligo
probe
vsn
oligo
updated 17.3 years ago by
Wolfgang Huber
★ 13k • written 17.3 years ago by
Hans-Ulrich Klein
▴ 330
0
votes
2
replies
1.1k
views
Loading Niblegen Files to Oligo
oligo
oligo
updated 13.4 years ago by
Benilton Carvalho
★ 4.3k • written 13.4 years ago by
Colleen Doherty
▴ 10
0
votes
4
replies
1.3k
views
Oligo error on OS X Leopard
Cancer
oligo
Cancer
oligo
updated 14.8 years ago by
Vincent J. Carey, Jr.
6.7k • written 14.8 years ago by
Daniel Brewer
★ 1.9k
0
votes
2
replies
1.2k
views
Which method best fit nylon single channel technology ?
affy
limma
oligo
affy
limma
oligo
updated 18.4 years ago by
TEXTORIS Julien
▴ 10 • written 18.4 years ago by
TEXTORIS Julien
▴ 160
0
votes
5
replies
1.2k
views
What to do with multiple probes?
Microarray
Normalization
probe
oligo
Microarray
Normalization
probe
oligo
updated 18.3 years ago by
rgentleman
★ 5.5k • written 18.4 years ago by
krasikov@science.uva.nl
▴ 100
0
votes
5
replies
913
views
Inconsistency in RMA results from 'affy' and results from 'oligo'
Annotation
cdf
oligo
Annotation
cdf
oligo
updated 14.6 years ago by
Steve Lianoglou
★ 13k • written 14.6 years ago by
Peng Yu
▴ 940
50 results • Page
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Answer: WGCNA: analysis of complex trait associations with regressions
by
James W. MacDonald
65k
This support site is meant to help people with questions about Bioconductor packages (WGCNA is not a Bioconductor package). You might try o…
Comment: miRTarRnaseq library
by
mercedeh.movassagh
▴ 10
Yes that is correct
Comment: What benchmark should I use for setting the EdgeR filterByExpr min.count paramet
by
Gordon Smyth
50k
It is the minimum group size rather than the total number of samples that is relevant. `min.prop` is more a biological parameter rather th…
Answer: Microarray Limma Model fitting and DEG
by
Gordon Smyth
50k
This dataset seems straightforward to analyse using the original MAS expression values on GEO. MAS expression values are known to be noisy …
Answer: Trimming a section of a scaffold from a genome
by
James W. MacDonald
65k
It's undoubtedly possible, but you don't provide enough information to go on. If I assume you are talking about an existing `BSgenome` pack…
Votes
A: Error object and replacement value dimnames differ, when changing column names o
Comment: What benchmark should I use for setting the EdgeR filterByExpr min.count paramet
Comment: What benchmark should I use for setting the EdgeR filterByExpr min.count paramet
DESeq2 normalization vs VST vs rlog
Answer: DESeq2 "Contrast" option
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