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Oligo
•
reset
0
votes
0
replies
1.7k
views
Draft support for HTA 2.0 with oligo
Annotation
oligo
pdInfoBuilder
Annotation
oligo
pdInfoBuilder
11.5 years ago
Elena Serrano
▴ 30
0
votes
4
replies
6.8k
views
Problem "Error: is.character(filenames) is not TRUE" in read.xysfiles (Oligo package)
Annotation
oligo
pdInfoBuilder
Annotation
oligo
pdInfoBuilder
updated 11.5 years ago by
James W. MacDonald
68k • written 11.5 years ago by
Tommaso Raffaello
▴ 60
0
votes
2
replies
1.9k
views
oligo annotation: pd.mogene.2.0.st vs pd.mogene.2.0.st.v1
Microarray
Annotation
oligo
Microarray
Annotation
oligo
updated 11.5 years ago by
James W. MacDonald
68k • written 11.5 years ago by
Bernd Klaus
▴ 610
0
votes
1
reply
2.0k
views
Draft support for HTA 2.0 with oligo
Annotation
oligo
pdInfoBuilder
Annotation
oligo
pdInfoBuilder
updated 11.7 years ago by
Mark Cowley
▴ 910 • written 11.7 years ago by
Benilton Carvalho
★ 4.3k
0
votes
2
replies
1.1k
views
paCalls() in oligo package fails for exon arrays (Error in normalizeSingleBracketSubscript)
oligo
oligo
updated 11.7 years ago by
Benilton Carvalho
★ 4.3k • written 11.7 years ago by
Guest User
★ 13k
0
votes
1
reply
2.1k
views
fRMA for Gene ST arrays
Microarray
probe
oligo
frma
Microarray
probe
oligo
frma
updated 11.7 years ago by
Matthew McCall
▴ 830 • written 11.7 years ago by
maria
▴ 10
0
votes
9
replies
2.9k
views
using frma and brainarray cdf on exon arrays
cdf
affy
PROcess
oligo
xps
frma
cdf
affy
PROcess
oligo
xps
frma
updated 11.7 years ago by
Stephen Piccolo
▴ 600 • written 11.7 years ago by
Ty Thomson
▴ 100
0
votes
0
replies
1.8k
views
Error using oligo package with Affymetrix Arabidopsis Gene ST1.0 array data: paCalls() returns error 'vector would be too long'
oligo
oligoClasses
oligo
oligoClasses
11.8 years ago
Peter Crisp
▴ 10
0
votes
1
reply
1.8k
views
limma2annaffy
GO
GUI
annaffy
oligo
oligoClasses
KEGGREST
GO
GUI
annaffy
oligo
oligoClasses
KEGGREST
updated 11.8 years ago by
James W. MacDonald
68k • written 11.8 years ago by
Guest User
★ 13k
0
votes
5
replies
2.2k
views
SCAN.UPC for Illumina arrays?
RNASeq
qPCR
affy
oligo
frma
RNASeq
qPCR
affy
oligo
frma
updated 11.9 years ago by
Stephen Piccolo
▴ 600 • written 11.9 years ago by
Tim Triche
★ 4.2k
0
votes
0
replies
1.4k
views
Farms/Call.INI using oligo package?
probe
affy
oligo
SIM
farms
probe
affy
oligo
SIM
farms
11.9 years ago
Djork Clevert
▴ 210
3
votes
5
replies
2.1k
views
Farms/Call.INI using oligo package?
probe
affy
oligo
farms
probe
affy
oligo
farms
updated 11.9 years ago by
Djork Clevert
▴ 210 • written 11.9 years ago by
Fraser Sim
▴ 270
0
votes
1
reply
3.1k
views
Analysis of Human Gene 1.1 ST Array
Microarray
cdf
affy
PROcess
oligo
xps
Microarray
cdf
affy
PROcess
oligo
xps
updated 11.9 years ago by
James W. MacDonald
68k • written 11.9 years ago by
Jerry Cholo
▴ 190
0
votes
3
replies
2.2k
views
Summarisation in oligo package after exclusion of probes containing SNPs
probe
affy
oligo
probe
affy
oligo
updated 11.9 years ago by
Daniel Bottomly
▴ 20 • written 11.9 years ago by
Guest User
★ 13k
0
votes
1
reply
1.5k
views
upload multiple genelists at a time for GO or pathway enrichment
GO
cdf
oligo
pdInfoBuilder
xps
GO
cdf
oligo
pdInfoBuilder
xps
updated 11.9 years ago by
Pekka Kohonen
▴ 190 • written 11.9 years ago by
Helen Smith
▴ 100
0
votes
1
reply
2.1k
views
Coercing matrix into expression set, for normalization of only subsets of miRNAs (affy miRNA3.0)
miRNA
Normalization
GO
Biobase
affy
convert
oligo
miRNA
Normalization
GO
Biobase
affy
updated 11.9 years ago by
Pekka Kohonen
▴ 190 • written 12.0 years ago by
James W. MacDonald
68k
0
votes
3
replies
1.2k
views
RSQLite and DB problems
oligo
oligo
updated 12.0 years ago by
James W. MacDonald
68k • written 12.0 years ago by
Assa Yeroslaviz
★ 1.5k
0
votes
0
replies
2.8k
views
Importing quantile normalized .txt file to limma for differential expression
Normalization
affy
limma
oligo
xps
Normalization
affy
limma
oligo
xps
12.0 years ago
James W. MacDonald
68k
3
votes
5
replies
5.8k
views
getBM returns shorter vectors than values
annotate
biomaRt
oligo
annotate
biomaRt
oligo
updated 12.1 years ago by
Steffen Durinck
▴ 540 • written 12.1 years ago by
Lescai, Francesco
▴ 380
0
votes
0
replies
1.5k
views
Annotating Results for HuEx 1.0 STv2 - Oligo
annotate
oligo
annotate
oligo
12.1 years ago
Bade
▴ 310
0
votes
4
replies
4.9k
views
Problem reading Cel files - Oligo Package
Annotation
oligo
Annotation
oligo
updated 12.1 years ago by
James W. MacDonald
68k • written 12.1 years ago by
Bade
▴ 310
0
votes
9
replies
2.7k
views
RNA degradation plot with oligo package GeneFeatureSet objects
affy
oligo
affy
oligo
updated 12.1 years ago by
James W. MacDonald
68k • written 12.1 years ago by
heyi xiao
▴ 360
0
votes
1
reply
876
views
RMA probe summarization when sizes of probesets are unequal
Microarray
Normalization
probe
oligo
Microarray
Normalization
probe
oligo
updated 12.1 years ago by
James W. MacDonald
68k • written 12.1 years ago by
Guest User
★ 13k
0
votes
3
replies
2.2k
views
oligo package attaching phenodata for HuGene2.0 ST array
oligo
oligo
updated 12.2 years ago by
James W. MacDonald
68k • written 12.2 years ago by
Guest User
★ 13k
0
votes
0
replies
1.2k
views
getting genotypes with oligo package
SNP
oligo
crlmm
SNP
oligo
crlmm
12.3 years ago
Guest User
★ 13k
0
votes
2
replies
1.4k
views
Reading Affy CEL files
annotate
affy
convert
oligo
annotate
affy
convert
oligo
updated 12.3 years ago by
Sidders, Benjamin
▴ 40 • written 12.3 years ago by
Ranjani R
▴ 10
0
votes
1
reply
1.8k
views
oligo package
oligo
oligo
updated 12.4 years ago by
Benilton Carvalho
★ 4.3k • written 12.4 years ago by
Guest User
★ 13k
0
votes
1
reply
3.8k
views
Error to import Data Affymetrix
affy
oligo
xps
affy
oligo
xps
updated 12.4 years ago by
Steve Lianoglou
★ 13k • written 12.4 years ago by
Guest User
★ 13k
0
votes
1
reply
1.7k
views
error when installing package oligo
oligo
oligo
updated 12.4 years ago by
Martin Morgan
25k • written 12.4 years ago by
Wolfgang Raffelsberger
▴ 60
0
votes
2
replies
2.5k
views
Annotation of Human Exon 1.0 ST
annotate
biomaRt
oligo
annotate
biomaRt
oligo
updated 12.4 years ago by
Benilton Carvalho
★ 4.3k • written 12.4 years ago by
Guest User
★ 13k
0
votes
4
replies
1.7k
views
Queries about getting annotation post-Limma analysis
Normalization
affy
limma
biomaRt
oligo
Normalization
affy
limma
biomaRt
oligo
updated 12.4 years ago by
Paul Shannon
▴ 750 • written 12.4 years ago by
Jeremy Ng
▴ 180
2
votes
5
replies
2.2k
views
rma of oligo feature set crashes R
oligo
oligo
updated 2.6 years ago by
James W. MacDonald
68k • written 12.4 years ago by
Ou, Jianhong
★ 1.3k
0
votes
1
reply
2.2k
views
rma command error in oligo package
oligo
oligo
updated 12.5 years ago by
James W. MacDonald
68k • written 12.5 years ago by
Guest User
★ 13k
0
votes
1
reply
1.4k
views
fRMA for Gene ST arrays
affy
oligo
frma
ASSIGN
affy
oligo
frma
ASSIGN
updated 12.5 years ago by
Matthew McCall
▴ 830 • written 12.5 years ago by
Kamila Naxerova
▴ 100
0
votes
0
replies
1.2k
views
faillure in ragene10stv1 in rat Gene St0.1 Affymetrix data
Annotation
affy
oligo
xps
Annotation
affy
oligo
xps
12.5 years ago
James W. MacDonald
68k
0
votes
0
replies
989
views
Exon Arrays - GC & how many pm features?
oligo
oligo
12.5 years ago
Jonathan Cairns
▴ 60
0
votes
2
replies
2.3k
views
Problem loading the "affxparser" dependency of the "oligo" package.
affxparser
oligo
affxparser
oligo
updated 12.5 years ago by
Russell Williams
▴ 20 • written 12.5 years ago by
Henrik Bengtsson
★ 2.4k
0
votes
1
reply
1.2k
views
Problem loading the "affxparser" dependency of the "oligo" package.
oligo
oligo
updated 12.5 years ago by
Henrik Bengtsson
★ 2.4k • written 12.5 years ago by
Russell Williams
▴ 20
0
votes
17
replies
9.3k
views
Analysis of Affymetrix Mouse Gene 2.0 ST arrays
Annotation
Normalization
GO
PROcess
oligo
Annotation
Normalization
GO
PROcess
oligo
updated 12.6 years ago by
James W. MacDonald
68k • written 12.6 years ago by
Kamila Naxerova
▴ 100
0
votes
2
replies
1.5k
views
Questions about MAplot in the oligo package
oligo
oligo
updated 12.6 years ago by
Benilton Carvalho
★ 4.3k • written 12.6 years ago by
He, Yiwen NIH/CIT
▴ 360
0
votes
0
replies
1.1k
views
A question about MAplot in the oligo package
oligo
oligo
12.6 years ago
He, Yiwen NIH/CIT
▴ 360
0
votes
0
replies
939
views
Error in sqliteExecStatement(con, statement, bind.data)
Microarray
ChipName
oligo
Microarray
ChipName
oligo
12.6 years ago
Guest User
★ 13k
0
votes
3
replies
1.4k
views
How to make a db package for Agilent-015354 Bovine Oligo Microarray (4x44K)?
Microarray
Annotation
oligo
Microarray
Annotation
oligo
updated 12.6 years ago by
Kaj Chokeshaiusaha
▴ 140 • written 12.6 years ago by
Guest User
★ 13k
0
votes
12
replies
8.0k
views
Have troubles with finding Annotations for Bovine and Rhesus\' platforms
Microarray
GO
oligo
AnnotationForge
Microarray
GO
oligo
AnnotationForge
12.6 years ago
James W. MacDonald
68k
0
votes
0
replies
948
views
CHARM: Affymetrix 1.0R tiling arrays import
BSgenome
affy
BSgenome
oligo
charm
BSgenome
affy
BSgenome
oligo
charm
12.6 years ago
Guest User
★ 13k
0
votes
1
reply
1.9k
views
filtering Gene 1.0 ST chips
TimeCourse
probe
timecourse
oligo
TimeCourse
probe
timecourse
oligo
updated 12.6 years ago by
Mark Cowley
▴ 910 • written 12.6 years ago by
Dennis Burian
▴ 10
0
votes
1
reply
1.1k
views
Have troubles with finding Annotations for Bovine and Rhesus\' platforms
Microarray
oligo
Microarray
oligo
updated 12.6 years ago by
Marc Carlson
★ 7.2k • written 12.6 years ago by
Guest User
★ 13k
0
votes
3
replies
1.3k
views
Differences in results analyzing Mouse Gene 1.0-ST using oligo and affy package
affy
limma
oligo
affy
limma
oligo
updated 12.7 years ago by
James W. MacDonald
68k • written 12.7 years ago by
Jon Toledo
▴ 20
0
votes
2
replies
1.5k
views
Oligo - oligo::probeNames() returns transcript clusters, not probe sets
probe
oligo
probe
oligo
updated 12.7 years ago by
James W. MacDonald
68k • written 12.7 years ago by
James Perkins
▴ 120
0
votes
8
replies
2.6k
views
vsn preprocess with oligo package
vsn
oligo
oligoClasses
vsn
oligo
oligoClasses
updated 12.7 years ago by
James W. MacDonald
68k • written 12.7 years ago by
José LÓPEZ
▴ 110
430 results • Page
4 of 9
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Comment: Streamlining the computing time for MiloDE p-value correction in large dataset?
by
ATpoint
★ 4.9k
Is a method that is so computationally expensive really beneficial and necessary? You seem to have biological replication, don't you, so ps…
Answer: NA values for DESeq2 p-values and adjusted p-values using large sample sizes
by
ATpoint
★ 4.9k
Outliers without replacement, independent filtering or all-zero counts for that gene. That's the three options that trigger NAs https://bio…
Comment: R course in Boston December 19-20
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• 0
The upcoming XLSolutions R course in Boston on December 19 20 is a great opportunity to enhance your data skills. Whether you re a beginner…
Answer: Gatins Set error
by
James W. MacDonald
68k
`GatingSet` isn't a function in `flowCore`. It is however in `flowWorkspace`, which you would need to load first.
Answer: How to model DE for RNA-seq in concordant monozygotic twins?
by
Gordon Smyth
53k
Your question is more about science than it is about software syntax, and I can't give advice about how to conduct a scientific analysis, n…
Votes
Comment: incomplete imputation of missing values with LEA impute() function
Answer: Expected memory usage for analyzing large single-cell seq datasets (> 450,000 ce
Answer: ordinary t from limma [was: How would I normally compare swirl?]
Comment: readDNAStringSet with non DNA characters
Comment: Guidance on limma for pseudobulk scRNA-seq with multi-factor design
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