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Preprocessing
•
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0
votes
0
replies
9.4k
views
virtualArray vignette does not work: 'data' must be of a vector type, was 'NULL'
Microarray
Annotation
Preprocessing
hgu133plus2
hgug4112a
virtualArray
Microarray
hgug4112a
10.7 years ago
Guest User
★ 13k
1
vote
4
replies
4.6k
views
How to process Nimblegen microarray .pair files to get normalized expression matrix
Microarray
Preprocessing
NimbleGen
Normalization
written 2.2 years ago by
Sarah
• 0
0
votes
6
replies
4.1k
views
using rma() on XYS files using oligo package
Annotation
Preprocessing
Annotation
Preprocessing
updated 11.0 years ago by
Benilton Carvalho
★ 4.3k • written 11.0 years ago by
James Yousin
▴ 30
0
votes
4
replies
3.3k
views
convert gene name to Affy ID
Preprocessing
Preprocessing
updated 12.2 years ago by
Julia Brettschneider
▴ 10 • written 12.2 years ago by
Guest User
★ 13k
3
votes
2
replies
3.2k
views
Nanostring ncounterdata - DESeq
RNASeq
Normalization
Preprocessing
DESeq
RNASeq
Normalization
Preprocessing
DESeq
updated 13.6 years ago by
Simon Anders
★ 3.8k • written 13.6 years ago by
Vanessa Vermeirssen
▴ 20
0
votes
3
replies
3.1k
views
fold-change when no expression to high expression
GO
Preprocessing
GO
Preprocessing
updated 15.7 years ago by
Wolfgang Huber
★ 13k • written 15.7 years ago by
Matthew McCormack
▴ 180
0
votes
0
replies
3.0k
views
Filtering is not recommended with LIMMA?
Microarray
Preprocessing
limma
Microarray
Preprocessing
limma
11.7 years ago
Gordon Smyth
52k
5
votes
5
replies
3.0k
views
Joint Preprocessing of RNA-Seq and Microarray datasets
preprocessing
rnaseq
microarray
updated 9.2 years ago by
Gordon Smyth
52k • written 9.2 years ago by
Jo
▴ 30
0
votes
3
replies
3.0k
views
Trouble creating a ShortReadQ object and using writeFastq
Preprocessing
ShortRead
Preprocessing
ShortRead
updated 12.0 years ago by
Martin Morgan
25k • written 12.0 years ago by
Noah Dowell
▴ 410
0
votes
3
replies
2.8k
views
Inherits(x,"data.frame") error in SamR
Microarray
Normalization
Preprocessing
Bayesian
Clustering
TimeCourse
Cancer
affy
vsn
LPE
19.0 years ago
McGee, Monnie
▴ 300
1
vote
6
replies
2.6k
views
How to process Affymetrix HT HG-U133+ PM Array Plate
affy
affymetrix microarrays
preprocessing
updated 6.9 years ago by
Guido Hooiveld
★ 4.1k • written 6.9 years ago by
Agaz Hussain Wani
▴ 260
0
votes
3
replies
2.6k
views
Minfi preprocessing and rs probes
Preprocessing
minfi
Preprocessing
minfi
updated 12.2 years ago by
Kasper Daniel Hansen
★ 6.5k • written 12.2 years ago by
Gustavo Fernández Bayón
▴ 440
0
votes
1
reply
2.4k
views
Recurrent error with Flashclust
Normalization
Preprocessing
probe
Normalization
Preprocessing
probe
updated 14.0 years ago by
Peter Langfelder
★ 3.0k • written 14.0 years ago by
Manca Marco PATH
▴ 340
0
votes
5
replies
2.4k
views
Analysing Human Gene ST 1.0 Arrays with oligo and oneChannelGUI yield different number of probesets
Preprocessing
cdf
oligo
oneChannelGUI
Preprocessing
cdf
oligo
oneChannelGUI
updated 15.3 years ago by
Benilton Carvalho
★ 4.3k • written 15.3 years ago by
Javier Pérez Florido
▴ 840
0
votes
1
reply
2.4k
views
Detecting differential usage of introns from RNA-seq data.
Preprocessing
DEXSeq
Preprocessing
DEXSeq
updated 11.7 years ago by
Alejandro Reyes
★ 1.9k • written 11.7 years ago by
Delasa Aghamirzaie
▴ 70
0
votes
0
replies
2.4k
views
makeTranscriptDbFromGFF fails on NCBI Bacteria
Alignment
Annotation
Normalization
GO
Preprocessing
Clustering
Cancer
Organism
probe
GLAD
11.5 years ago
Sarah Pohl
▴ 30
3
votes
9
replies
2.3k
views
About the best use of frma for several GEO Series
frma
normalization
preprocessing
updated 8.2 years ago by
Matthew McCall
▴ 830 • written 8.2 years ago by
ctruntzer
▴ 20
0
votes
1
reply
2.2k
views
Entrez Gene ID to Probe Set Name
aCGH
Sequencing
miRNA
Microarray
Annotation
Normalization
GO
Preprocessing
Visualization
updated 16.3 years ago by
Marc Carlson
★ 7.2k • written 16.3 years ago by
McGee, Monnie
▴ 300
0
votes
6
replies
2.1k
views
RMA vs VSN
Preprocessing
vsn
Preprocessing
vsn
20.7 years ago
Roger Vallejo
▴ 120
0
votes
3
replies
2.1k
views
[Bioc-sig-seq] Bioconductor 2.8 is released
SNP
Sequencing
miRNA
Microarray
Annotation
Normalization
Pathways
Preprocessing
Survival
updated 13.9 years ago by
Ivan Gregoretti
▴ 310 • written 13.9 years ago by
Dan Tenenbaum
★ 8.2k
0
votes
2
replies
2.0k
views
[MEDIPS] Error in 1:max_signal_index : argument of length 0 - what does mean?
Preprocessing
Regression
MEDIPS
Preprocessing
Regression
MEDIPS
updated 11.1 years ago by
Lukas Chavez
▴ 570 • written 11.1 years ago by
김종환
▴ 20
5
votes
4
replies
2.0k
views
meta analysis of microarrays of small sample sizes
preprocessing
microarray
genemeta
updated 8.3 years ago by
alexvpickering
▴ 110 • written 8.3 years ago by
Lian Liu
▴ 20
0
votes
1
reply
1.9k
views
nsfilter error from expressionset obtained after using aroma for processing
Annotation
Preprocessing
hgu95av2
limma
Annotation
Preprocessing
hgu95av2
limma
updated 11.9 years ago by
Wolfgang Huber
★ 13k • written 11.9 years ago by
Andreia Fonseca
▴ 810
0
votes
3
replies
1.9k
views
Searching for packages for normalizing Metabolomic data
Preprocessing
Preprocessing
updated 7.5 years ago by
hemi.luan
▴ 10 • written 14.2 years ago by
nqueralt@clinic.ub.es
▴ 60
0
votes
0
replies
1.9k
views
Median-Interquartile Normalization
Microarray
SystemsBiology
Annotation
GO
Preprocessing
Clustering
Cancer
Yeast
Organism
GO
17.3 years ago
McGee, Monnie
▴ 300
0
votes
2
replies
1.9k
views
summarizing probe intensites before or after normalization- 1. how to do with RMA 2. Opinions?
Microarray
Normalization
Preprocessing
Cancer
probe
affy
convert
affyio
Microarray
Cancer
18.4 years ago
James W. MacDonald
68k
0
votes
0
replies
1.9k
views
reading with lumi
Preprocessing
PROcess
lumi
methylumi
Preprocessing
PROcess
lumi
methylumi
13.0 years ago
Tim Triche
★ 4.2k
4
votes
0
replies
1.8k
views
how to test for genes of interest?
Normalization
Preprocessing
limma
Normalization
Preprocessing
limma
16.6 years ago
Gordon Smyth
52k
1
vote
0
replies
1.8k
views
Pre-processing of RNA sequencing data for GSVA
rnaseq
rna-seq
preprocessing
gsva
8.5 years ago
t.kuilman
▴ 170
0
votes
6
replies
1.8k
views
limma
Preprocessing
limma
Preprocessing
limma
13.9 years ago
Gordon Smyth
52k
0
votes
4
replies
1.8k
views
IONiseR readFast5Summary Error
R
sequencing
preprocessing
bioconductor
updated 9.2 years ago by
Mike Smith
★ 6.6k • written 9.2 years ago by
mariandhore
• 0
1
vote
1
reply
1.8k
views
Minfi RGChannelSet preprocessing error in assayDataElement
minfi
preprocessing
error
updated 8.4 years ago by
Kasper Daniel Hansen
★ 6.5k • written 8.4 years ago by
lily
• 0
0
votes
1
reply
1.8k
views
The number of features of Expression Set for Affymetrix miRNA 4.0 data preprocsessed by oligo package
affy
oligo
microarray
preprocessing
microrna
updated 9.7 years ago by
James W. MacDonald
68k • written 9.7 years ago by
enthelesia
• 0
0
votes
0
replies
1.8k
views
Limma: Very high logFC values
Preprocessing
probe
vsn
limma
Preprocessing
probe
vsn
limma
17.5 years ago
Gordon Smyth
52k
0
votes
7
replies
1.7k
views
rMAT tutorial. Data file too large?
Preprocessing
GUI
rMAT
Preprocessing
GUI
rMAT
14.8 years ago
Patrick Schorderet
▴ 50
0
votes
4
replies
1.7k
views
Bioconductor 2.8 is released
SNP
Sequencing
miRNA
Microarray
Annotation
Normalization
Pathways
Preprocessing
Network
updated 13.9 years ago by
Ivan Gregoretti
▴ 310 • written 13.9 years ago by
Dan Tenenbaum
★ 8.2k
0
votes
4
replies
1.7k
views
HTqPCR problems
qPCR
GO
Preprocessing
GLAD
HTqPCR
qPCR
GO
Preprocessing
GLAD
HTqPCR
updated 12.6 years ago by
Simon Melov
▴ 340 • written 12.6 years ago by
Heidi Dvinge
★ 2.0k
0
votes
0
replies
1.7k
views
samr Error in quantile.default
Preprocessing
Preprocessing
15.2 years ago
Steve Chatfield
▴ 10
0
votes
0
replies
1.7k
views
I: R: R: R: Probe-level analysis of exon arrays using xps
Annotation
Normalization
Preprocessing
Breast
Prostate
probe
GLAD
Category
xps
Annotation
13.4 years ago
Lavorgna Giovanni
▴ 80
0
votes
2
replies
1.6k
views
ReadAffy crashes on mac
Preprocessing
affy
convert
affxparser
affyio
BUS
Preprocessing
affy
convert
affxparser
updated 16.5 years ago by
Ben Bolstad
★ 1.2k • written 16.5 years ago by
Nathan S. Watson-Haigh
▴ 40
0
votes
5
replies
1.6k
views
normalisation + sam
Preprocessing
siggenes
Preprocessing
siggenes
updated 14.8 years ago by
Wolfgang Huber
★ 13k • written 14.8 years ago by
Mike Dewar
▴ 60
0
votes
5
replies
1.6k
views
Imitating Affy's own steps
Microarray
Normalization
GO
Preprocessing
gcrma
Microarray
Normalization
GO
Preprocessing
updated 14.9 years ago by
James W. MacDonald
68k • written 14.9 years ago by
Timothy Wu
▴ 120
0
votes
1
reply
1.6k
views
PDict in GenomicRanges
Preprocessing
Cancer
Preprocessing
Cancer
12.5 years ago
Hervé Pagès
16k
0
votes
1
reply
1.6k
views
Difference between GDS .Cel and series.matrix.txt
Normalization
Preprocessing
Normalization
Preprocessing
updated 10.9 years ago by
Sean Davis
21k • written 10.9 years ago by
Cherif Ben Hamda
▴ 150
2
votes
2
replies
1.6k
views
AgilentG4502A_07_2 and AgilentG4502A_07_1
limma
read.maimages
normalization
preprocessing
updated 7.2 years ago by
Gordon Smyth
52k • written 7.2 years ago by
marviedemit
▴ 10
0
votes
1
reply
1.6k
views
Normalization of Agilent miRNA arrays using spike-ins
miRNA
Normalization
Preprocessing
vsn
limma
miRNA
Normalization
Preprocessing
vsn
limma
updated 16.3 years ago by
Wolfgang Huber
★ 13k • written 16.3 years ago by
Christian Eisen
▴ 60
0
votes
0
replies
1.5k
views
GEOquery/virtualArray package error
Preprocessing
hgu95av2
virtualArray
Preprocessing
hgu95av2
virtualArray
10.8 years ago
Guest User
★ 13k
0
votes
1
reply
1.5k
views
BioC 2.2 now available
SNP
Microarray
Genetics
Annotation
Preprocessing
Bayesian
Clustering
Infrastructure
Cancer
updated 16.8 years ago by
Patrick Aboyoun
★ 1.6k • written 16.8 years ago by
Martin Morgan
25k
0
votes
2
replies
1.5k
views
Agilent single color array
Normalization
Preprocessing
vsn
limma
Normalization
Preprocessing
vsn
limma
updated 16.6 years ago by
Sean Davis
21k • written 16.6 years ago by
Kasper Daniel Hansen
★ 6.5k
0
votes
1
reply
1.5k
views
Segfault in MEDIPS MEDIPS.methylProfiling() with ROI file
Preprocessing
BSgenome
biomaRt
BSgenome
GenomicRanges
MEDIPS
Preprocessing
BSgenome
MEDIPS
updated 11.9 years ago by
Lukas Chavez
▴ 570 • written 11.9 years ago by
Stephen Turner
▴ 290
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