Showing : oligo • reset
0
votes
5
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1.3k
views
Inconsistency in RMA results from 'affy' and results from 'oligo'
Annotation cdf oligo Annotation cdf oligo
updated 16.3 years ago by ★ 13k • written 16.3 years ago by ▴ 950
0
votes
2
replies
1.3k
views
Inconsistency in RMA results from 'affy' and results from 'oligo'
cdf oligo cdf oligo
updated 16.3 years ago by ★ 4.3k • written 16.3 years ago by ▴ 950
0
votes
0
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798
views
makePdInfoPackage in preparation for RMA with oligo on Nimblegen Expression Arrays
Annotation oligo Annotation oligo
16.3 years ago Jack Schonbrun ▴ 50
0
votes
2
replies
2.7k
views
pd.hugene.1.0.st.v1
Epigenetics Annotation oligo Epigenetics Annotation oligo
updated 16.3 years ago by ★ 4.3k • written 16.3 years ago by ★ 1.1k
0
votes
1
reply
1.8k
views
pd.hugene.1.0.st.v1
oligo oligo
updated 16.3 years ago by 6.7k • written 16.3 years ago by ★ 1.1k
0
votes
3
replies
1.5k
views
makePdInfoPackage in preparation for RMA with oligo on Nimblegen Expression Arrays
Annotation oligo Annotation oligo
16.4 years ago Jack Schonbrun ▴ 50
0
votes
4
replies
1.7k
views
Oligo error on OS X Leopard
Cancer oligo Cancer oligo
updated 16.5 years ago by 6.7k • written 16.5 years ago by ★ 1.9k
0
votes
0
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1.2k
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problem with pdInfoBuilder
Annotation oligo pdInfoBuilder Annotation oligo pdInfoBuilder
16.5 years ago Elsa Aguera ▴ 10
0
votes
10
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2.5k
views
One-color spotted microarrays analysis
Microarray Normalization oligo Microarray Normalization oligo
updated 16.5 years ago by ★ 13k • written 16.5 years ago by ▴ 30
0
votes
0
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920
views
intraSpotCorrelation
oligo oligo
16.5 years ago Gordon Smyth 53k
0
votes
0
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1.0k
views
limma separate channel analysis: extremely low consensus intraspotcorrelation
oligo oligo
16.6 years ago Thierry Janssens ▴ 40
0
votes
0
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1.6k
views
Question about using oligo and SNPchip for copy number analysis
SNP Cancer graph oligo SNPchip oligoClasses VanillaICE crlmm SNP Cancer graph oligo
16.6 years ago Min-Han Tan ▴ 40
0
votes
2
replies
1.9k
views
About Volcano Plot
oligo oligo
updated 16.6 years ago by ▴ 750 • written 16.6 years ago by ▴ 380
0
votes
2
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1.4k
views
Question regarding Affy SNP 5.0/BI_SNP arrays
SNP Annotation cdf affy PROcess oligo SNP Annotation cdf affy PROcess oligo
updated 16.6 years ago by ▴ 40 • written 16.6 years ago by ▴ 120
0
votes
2
replies
2.5k
views
RMA implemented in oligo package vs affy package
ExperimentData cdf affy PROcess oligo ExperimentData cdf affy PROcess oligo
16.7 years ago heyi xiao ▴ 360
0
votes
1
reply
998
views
AnnotationDbi problem.
Annotation oligo Annotation oligo
updated 16.7 years ago by ★ 7.2k • written 16.7 years ago by ▴ 30
0
votes
5
replies
1.6k
views
xps rma() with HuGene-1_0-st-v1 on 64-bit architecture
Annotation Preprocessing probe oligo xps Annotation Preprocessing probe oligo xps
updated 16.8 years ago by ★ 3.9k • written 16.8 years ago by ▴ 270
0
votes
0
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714
views
NormalizationWithinArrays
oligo oligo
16.9 years ago Priscila Grynberg ▴ 380
0
votes
0
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1.4k
views
Affymetrix Array Rat Gene 1.0 ST - some annotation challenges
Annotation Normalization probe affy PROcess oligo exonmap Annotation Normalization probe
17.0 years ago Alexander C Cambon ▴ 30
0
votes
2
replies
2.0k
views
Custom CDF files
Annotation GO cdf affy PROcess oligo pdInfoBuilder Annotation GO cdf affy PROcess
updated 17.0 years ago by ★ 1.1k • written 17.0 years ago by ▴ 20
0
votes
1
reply
1.2k
views
Oligo:read.xysfiles fails
PROcess oligo PROcess oligo
17.1 years ago Mikko Arvas ▴ 90
0
votes
2
replies
1.4k
views
PdInfobuilder: Preparing data from Affymetrix HuGene expression arrays
affy oligo affy oligo
updated 17.1 years ago by 21k • written 17.1 years ago by ▴ 100
0
votes
1
reply
1.5k
views
PdInfobuilder: Preparing data from Affymetrix HuGene expression arrays
affy oligo affy oligo
updated 17.1 years ago by 21k • written 17.1 years ago by ▴ 100
0
votes
2
replies
1.1k
views
quantile normalization with common standards
GO oligo GO oligo
updated 17.1 years ago by ★ 13k • written 17.1 years ago by ▴ 150
0
votes
3
replies
1.4k
views
multicore processor
oligo oligo
updated 17.1 years ago by ▴ 500 • written 17.1 years ago by ▴ 20
0
votes
1
reply
815
views
help with using pdInfoBuilder and oligo for Affy Gene Set arrays
affy oligo affy oligo
updated 17.1 years ago by 68k • written 17.1 years ago by ▴ 830
0
votes
1
reply
958
views
Human gene 1.0 st analysis
oligo oligo
updated 17.2 years ago by ★ 1.1k • written 17.2 years ago by ▴ 10
0
votes
1
reply
1.3k
views
Bioconductor Digest, Vol 68, Issue 7
oligo pdInfoBuilder oligoClasses oligo pdInfoBuilder oligoClasses
written 17.2 years ago by ▴ 70
0
votes
2
replies
1.6k
views
Getting dChip SNP intensity in BioC?
SNP oligo SNP oligo
updated 17.2 years ago by ★ 2.4k • written 17.2 years ago by ★ 3.9k
0
votes
2
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1.5k
views
Question about using Biostrings & BSgenome
oligo oligo
updated 17.2 years ago by ▴ 730 • written 17.2 years ago by ★ 1.9k
0
votes
0
replies
1.6k
views
Sc03b_MR_v04 CDF package
BiocViews Genetics Yeast cdf probe affy affxparser biocViews oligo pdInfoBuilder Yeast
17.2 years ago Ludo Muller ▴ 50
0
votes
0
replies
1.3k
views
Limma-design matrix for technical replication
Microarray Genetics oligo Microarray Genetics oligo
17.3 years ago Gordon Smyth 53k
0
votes
1
reply
1.6k
views
Limma-design matrix for technical replication
Genetics oligo Genetics oligo
updated 17.3 years ago by ★ 2.0k • written 17.3 years ago by ▴ 10
0
votes
1
reply
994
views
oligo package - affymetrix tiling arrays.
oligo oligo
updated 17.3 years ago by ★ 1.1k • written 17.3 years ago by ▴ 480
0
votes
0
replies
1.7k
views
gcRMA on a GeneFeatureSet from Affy MoGene 1.0 ST v1?
Annotation probe affy gcrma PROcess oligo Annotation probe affy gcrma PROcess oligo
17.3 years ago Jean Hausser ▴ 20
0
votes
4
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1.3k
views
rma for tiling arrays (oligo package)
oligo oligo
updated 17.4 years ago by 68k • written 17.4 years ago by ▴ 340
0
votes
0
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1.1k
views
how to get oligoSnpSet object?
SNP oligo SNP oligo
17.4 years ago Yupu Liang ▴ 50
0
votes
0
replies
1.2k
views
Problem with makePDpackage in makePlatformDesign and getCdfInfo in affy
cdf affy gcrma oligo makePlatformDesign cdf affy gcrma oligo makePlatformDesign
17.4 years ago Benjamin Lansdell ▴ 30
0
votes
3
replies
1.4k
views
Drosophila tiling array background correction
cdf probe oligo cdf probe oligo
updated 17.4 years ago by ★ 13k • written 17.4 years ago by ▴ 30
0
votes
2
replies
1.5k
views
RSQLite error when using AnnotationDbi/SQLForge
oligo oligo
updated 17.4 years ago by ▴ 760 • written 17.4 years ago by ▴ 270
0
votes
1
reply
799
views
error when using GOstats with AnnBuilder built package
Annotation GO GOstats oligo Annotation GO GOstats oligo
updated 17.4 years ago by ★ 7.2k • written 17.4 years ago by ▴ 270
0
votes
4
replies
3.2k
views
topGO w/custom annotation
Annotation GO oligo Annotation GO oligo
updated 17.5 years ago by 68k • written 17.5 years ago by ▴ 370
0
votes
0
replies
1.1k
views
affy mouse promoter tiling array analysis
Normalization oligo makePlatformDesign Normalization oligo makePlatformDesign
17.6 years ago Naira Naouar ▴ 140
0
votes
3
replies
1.5k
views
R help with large matrices
oligo BAC oligo BAC
updated 17.7 years ago by 21k • written 17.7 years ago by ▴ 70
0
votes
1
reply
1.5k
views
Is it possible to use RMA on Agilent Data
Organism Arabidopsis thaliana probe affy oligo Organism Arabidopsis thaliana probe affy
updated 17.7 years ago by ★ 1.3k • written 17.7 years ago by ▴ 110
0
votes
0
replies
1.0k
views
Help with Affy TilingArray makePDpackage
oligo oligo
17.8 years ago Owen Thomas ▴ 40
0
votes
4
replies
2.0k
views
Help with Affy TilingArray makePDpackage
affyio oligo affyio oligo
updated 17.8 years ago by ★ 1.2k • written 17.8 years ago by ▴ 40
0
votes
3
replies
2.0k
views
CGHcall error
Cancer Organism MANOR oligo CGHcall BAC Cancer Organism MANOR oligo CGHcall BAC
updated 17.8 years ago by ★ 2.4k • written 17.8 years ago by ▴ 110
0
votes
0
replies
666
views
affy Package
oligo oligo
17.9 years ago Naomi Altman ★ 6.0k
0
votes
5
replies
1.3k
views
different density
oligo oligo
updated 18.0 years ago by ★ 6.0k • written 18.0 years ago by ▴ 20
430 results • Page 7 of 9
Recent ...
Replies
Comment: Question about DESeq2 Design for Paired Treatment Study by ATpoint ★ 5.0k
It's a paired analysis so you don't need any patient-specific covariates such as age and sex. What you call batch effect might just be the …
Comment: problem reading bam files into nucleR by efoss ▴ 10
I thought I might be able to track down a problematic line in the bam file by repeatedly splitting the bam file in and then running the co…
Answer: two questions about limma by Gordon Smyth 53k
Answered here: https://support.bioconductor.org/p/16318/
Comment: Highly similar RNA-seq samples in PCA - pooling or technical duplication? by Ahmed Salah • 0
Thank you very much! will take that into consideration
Comment: Large logFC but somewhat high FDR by JKim • 0
Thank you very much for taking the time to answer the question. I really appreciate your insights and comments.
Votes
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
Comment: upstream git branches of bioc-release
Comment: upstream git branches of bioc-release
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