Showing : cdf • reset
0
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2
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1.2k
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some basic questions
Microarray Annotation Normalization cdf probe cycle Microarray Annotation Normalization
updated 13.9 years ago by ★ 2.0k • written 13.9 years ago by ▴ 40
0
votes
2
replies
1.1k
views
some basic questions
Microarray Normalization cdf cycle Microarray Normalization cdf cycle
updated 13.9 years ago by 21k • written 13.9 years ago by ★ 13k
0
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1.5k
views
Bioconductor 2.9 is released
Transcription Sequencing miRNA qPCR Proteomics Annotation Normalization Visualization cdf
14.0 years ago Dan Tenenbaum ★ 8.2k
0
votes
1
reply
1.1k
views
CDF for GeneChip miRNA 2 array
miRNA cdf miRNA cdf
updated 14.0 years ago by ★ 4.1k • written 14.0 years ago by ★ 13k
0
votes
4
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1.5k
views
R/Bioconductor CDF to Affymetrix CDF
cdf convert cdf convert
updated 14.0 years ago by ▴ 10 • written 14.0 years ago by ▴ 830
0
votes
1
reply
994
views
question about affymetrix array:ht-hg-u133acdf
Microarray cdf Microarray cdf
updated 14.0 years ago by 68k • written 14.0 years ago by ★ 13k
0
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1.1k
views
a question about getCdfInfo package in GCRMA, thanks for your help.
Annotation cdf makecdfenv Annotation cdf makecdfenv
14.0 years ago boczniak767 ▴ 740
0
votes
5
replies
1.6k
views
need help with SNP6.0 quantile normalization
SNP Normalization cdf SNP Normalization cdf
updated 14.0 years ago by 6.7k • written 14.0 years ago by ▴ 30
0
votes
2
replies
2.6k
views
Installing packages on R v2.13.2, OSX multiple warning messages
Annotation cdf probe affy gcrma Annotation cdf probe affy gcrma
updated 14.0 years ago by 68k • written 14.0 years ago by ★ 13k
0
votes
2
replies
997
views
new affy zebrafish genechip cdf
cdf cdf
updated 14.1 years ago by 68k • written 14.1 years ago by ▴ 20
0
votes
1
reply
1.7k
views
justRMA {affy} error
Annotation ExperimentData cdf Annotation ExperimentData cdf
updated 14.2 years ago by 25k • written 14.2 years ago by ▴ 10
0
votes
0
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855
views
SimpleAffy qc step for custom CDF files
cdf cdf
14.2 years ago Ahmed, Rizwan ▴ 10
0
votes
0
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1.2k
views
Question about 'updateCel' from package 'affxparser'
cdf PROcess affxparser cdf PROcess affxparser
14.2 years ago Henrik Bengtsson ★ 2.4k
0
votes
1
reply
1.4k
views
Illumina CytoSNP-12 CDF file for crlmm
cdf PROcess cdf PROcess
updated 14.2 years ago by ★ 4.3k • written 14.2 years ago by ▴ 10
0
votes
2
replies
1.9k
views
Unable to read Affy Mouse Exon 1.0 ST array CEL file
Annotation cdf affy gcrma oligo Annotation cdf affy gcrma oligo
updated 14.2 years ago by ★ 3.9k • written 14.2 years ago by ▴ 60
0
votes
0
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913
views
Question about 'updateCel' from package 'affxparser'
cdf PROcess cdf PROcess
14.3 years ago Steve Pederson ▴ 170
0
votes
1
reply
1.2k
views
cdf environment fo microRNA dataset
Microarray cdf microRNA Microarray cdf microRNA
updated 14.3 years ago by 68k • written 14.3 years ago by ▴ 10
0
votes
6
replies
3.0k
views
Library installation: odd error
cdf probe cdf probe
updated 14.3 years ago by ★ 13k • written 14.3 years ago by ▴ 50
0
votes
0
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1.0k
views
Fwd: Unable to install packages
Microarray Annotation cdf probe cycle Microarray Annotation cdf probe cycle
14.3 years ago James W. MacDonald 68k
0
votes
1
reply
1.1k
views
altcdfenvs: mapping probes and creating new probe sets: guidance requested
cdf probe affy altcdfenvs cdf probe affy altcdfenvs
updated 14.3 years ago by 68k • written 14.3 years ago by ▴ 80
0
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0
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1.1k
views
Resend: altcdfenvs: mapping probes and creating new probe sets: guidance requested
cdf probe affy altcdfenvs cdf probe affy altcdfenvs
14.3 years ago Ariel Grostern ▴ 80
0
votes
2
replies
1.3k
views
AnnotationDbi:makeProbePackage for PM-only chips....getting closer.....now error in installation of probe package
cdf probe affy AnnotationDbi cdf probe affy AnnotationDbi
updated 14.3 years ago by 68k • written 14.3 years ago by ▴ 80
0
votes
1
reply
1.0k
views
A circular problem: re-annotation of custom PM only probes
cdf matchprobes cdf matchprobes
updated 14.4 years ago by ★ 7.2k • written 14.4 years ago by ▴ 80
0
votes
0
replies
1.3k
views
Converting makeProbePackage in AnnotationDbi to permit PM-only arrays
cdf probe affy altcdfenvs cdf probe affy altcdfenvs
14.4 years ago Ariel Grostern ▴ 80
0
votes
1
reply
1.3k
views
Re-annotation of probes for an Affy custom microarray
Annotation cdf affy Annotation cdf affy
updated 14.4 years ago by ★ 2.3k • written 14.4 years ago by ▴ 80
0
votes
0
replies
1.8k
views
Using pdInfoBuilder for Human Exon Array
BiocViews Annotation Organism cdf biocViews oligo pdInfoBuilder BiocViews BiocViews cdf
14.4 years ago Maria Rodrigo-Domingo / Region Nordjyll… ▴ 10
0
votes
0
replies
946
views
AffyProbeMiner Mouse 4302 geneccds CDF file
cdf cdf
14.4 years ago Benjamin Otto ▴ 830
0
votes
1
reply
1.3k
views
RMA (affy) followed by SAM (samr)
rae230a rae230b cdf affy PROcess rae230a rae230b cdf affy PROcess
updated 14.4 years ago by ▴ 900 • written 14.4 years ago by ▴ 30
0
votes
0
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764
views
Error in FUN(c("AFFX-b-ActinMur/M12481_3_at", "AFFX-b-ActinMur/M12481_5_at", : , subscript out of bounds
Microarray cdf Microarray cdf
14.5 years ago pratibha.mani@geschickten.com ▴ 10
0
votes
2
replies
827
views
Error in AnnotationDbi package - makeProbePackage
cdf limma AnnotationDbi cdf limma AnnotationDbi
updated 14.5 years ago by ★ 6.5k • written 14.5 years ago by ▴ 20
0
votes
1
reply
1.2k
views
BrainArray custom CDF repository missing in biocReposList()
Microarray cdf probe graph Microarray cdf probe graph
updated 14.5 years ago by 68k • written 14.5 years ago by ▴ 100
0
votes
1
reply
2.2k
views
Having trouble with new brainarray CDF
Microarray Annotation AnnotationData AffymetrixChip hgu133a2 cdf probe graph AnnotationDbi
updated 14.5 years ago by ★ 7.2k • written 14.5 years ago by ▴ 100
0
votes
2
replies
1.3k
views
problems with Affymetrix probes id using exonmap and xmapcore
Annotation cdf exonmap xmapcore Annotation cdf exonmap xmapcore
14.5 years ago Tim Yates ▴ 250
0
votes
0
replies
997
views
problems with Affymetrix probes id using exonmap and xmapcore
Annotation cdf exonmap xmapcore Annotation cdf exonmap xmapcore
14.5 years ago Gomez Moruno, Antonio ▴ 30
0
votes
0
replies
879
views
Custom cdf 14.1.0 is released
cdf cdf
14.5 years ago Manhong Dai ▴ 200
0
votes
0
replies
1.1k
views
exonmap problems with rma normalization
Normalization cdf exonmap Normalization cdf exonmap
14.5 years ago Gomez Moruno, Antonio ▴ 30
0
votes
0
replies
1.2k
views
custom CDF files for non-redundant transcript/gene annotation that is consistent over several platforms
Microarray Annotation cdf probe Microarray Annotation cdf probe
14.5 years ago Andreas Heider ▴ 340
0
votes
1
reply
1.1k
views
customCDF name not recognized and switched to Affy CDF
cdf affy gcrma cdf affy gcrma
updated 14.5 years ago by 68k • written 14.5 years ago by ▴ 80
0
votes
0
replies
662
views
drosophila2cdf.qcdf
cdf cdf
14.6 years ago Assa Yeroslaviz ★ 1.5k
0
votes
3
replies
1.7k
views
Does 'arrayQualityMetrics' package work with Affymetrix Human Exon 1.0 ST Arrays?
cdf cdf
updated 14.6 years ago by ★ 13k • written 14.6 years ago by ▴ 60
0
votes
0
replies
965
views
question about the aroma.affymetrix
cdf cdf
14.6 years ago Xiaowei Guan ▴ 90
0
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0
replies
1.1k
views
Custom CDF Version 14 is released
cdf cdf
14.6 years ago Manhong Dai ▴ 200
0
votes
4
replies
5.2k
views
Bioconductor with Affymetrix Mouse Gene 1.0 ST
Annotation cdf PROcess safe Annotation cdf PROcess safe
14.6 years ago M. Emily Merrill ▴ 20
0
votes
5
replies
2.1k
views
Human Gene 1.1 ST cdf
cdf cdf
updated 14.6 years ago by ▴ 320 • written 14.6 years ago by ▴ 260
0
votes
0
replies
1.4k
views
quality control of affy Chips for miRNA
miRNA cdf probe affy simpleaffy affyQCReport affycoretools arrayQualityMetrics miRNA cdf
14.7 years ago Assa Yeroslaviz ★ 1.5k
0
votes
1
reply
1.0k
views
affymetrix miRNA QC Tool vs expresso data discrepancy
cdf affy cdf affy
updated 14.7 years ago by 68k • written 14.7 years ago by ▴ 10
0
votes
1
reply
1.3k
views
quality control of affy Chips for miRNA
miRNA cdf affy simpleaffy affyQCReport affycoretools miRNA cdf affy simpleaffy
updated 14.7 years ago by 68k • written 14.7 years ago by ★ 1.5k
0
votes
1
reply
1.0k
views
affxparser/convertCel() error "Internal error: Failed to extract 'pixelRange' and 'sampleName' from DAT header" (Was: Re: load and normalize arrays f…
cdf cdf
14.7 years ago Henrik Bengtsson ★ 2.4k
0
votes
5
replies
1.8k
views
load and normalize arrays from different platform
cdf cdf
updated 14.7 years ago by 68k • written 14.7 years ago by ▴ 360
0
votes
2
replies
1.2k
views
miRNA-1_0_2Xgain win binary packages
miRNA Microarray cdf miRNA Microarray cdf
updated 14.7 years ago by 6.7k • written 14.7 years ago by ▴ 20
927 results • Page 4 of 19
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Answer: Using DESeq2 for age prediction by ATpoint ★ 5.0k
The package has no such inbuilt function but you are free to use the vst (or any normalized) counts to train a regression model or classifi…
Comment: Best practice for handling large data (matrix with >2^31-1 non-zero elements) in by James W. MacDonald 68k
Aaron already answered your question. If you have an HDF5 file, it will be read in as a `TENxMatrix` object, which isn't actually read in -…
Comment: Best practice for handling large data (matrix with >2^31-1 non-zero elements) in by dan.gatti • 0
Very strange. We have the same package versions. I tried adding the mtx.class, type, and delayed arguments, but it's still making the coun…
Comment: DESeq2 for candidate gene analysis by piffelpaff ▴ 20
thank you so much for answering Dr. Love!
Answer: DESeq2 for candidate gene analysis by Michael Love 43k
Your plan 1 is reasonable. Run DESeq2 on the whole dataset to obtain size factors and moderated dispersion estimates and then extract the u…
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A: Multi-level experiments in Limma
Answer: Should voomWithQualityWeights still be used when the sample-specific weights var
Answer: DESeq2 for candidate gene analysis
DESeq2 for candidate gene analysis
Answer: DESeq2 for candidate gene analysis
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