Showing : cdf • reset
0
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1.1k
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affy annotation database
Annotation cdf affy Annotation cdf affy
updated 12.8 years ago by 68k • written 12.8 years ago by ▴ 20
0
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3
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2.1k
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Using fRMA with "alternative" CDF files
Normalization cdf frma Normalization cdf frma
updated 12.8 years ago by ▴ 830 • written 12.8 years ago by ▴ 110
0
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2
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1.2k
views
question of justRMA on exon array
cdf affy cdf affy
updated 12.8 years ago by 68k • written 12.8 years ago by ▴ 450
0
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12
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2.9k
views
justRMA?
cdf probe cdf probe
updated 12.9 years ago by 68k • written 12.9 years ago by ▴ 70
0
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1
reply
1.0k
views
Custom CDF for alternative splicing with xps
Annotation cdf xps Annotation cdf xps
updated 12.9 years ago by ★ 3.9k • written 12.9 years ago by ★ 13k
0
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0
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1.5k
views
Error: cannot allocate vector of size 618.0 Mb
Annotation Cancer cdf Annotation Cancer cdf
12.9 years ago Henrik Bengtsson ★ 2.4k
0
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1
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1.4k
views
Error: cannot allocate vector of size 618.0 Mb
Annotation cdf Annotation cdf
updated 12.9 years ago by ▴ 580 • written 12.9 years ago by ▴ 20
0
votes
8
replies
2.9k
views
CDF for GeneChip miRNA 2 array - Is there a miRNA 3 CDF?
miRNA GO cdf affy arrayQualityMetrics miRNA GO cdf affy arrayQualityMetrics
updated 13.0 years ago by 68k • written 13.0 years ago by ▴ 290
0
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7
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1.4k
views
making a cdf package for a custom affymetrix array
cdf cdf
updated 13.0 years ago by 68k • written 13.0 years ago by ▴ 50
0
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1
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1.2k
views
Reading in of Exon Array CEL files for normalization/ workflow
Normalization GO cdf affy Normalization GO cdf affy
updated 13.0 years ago by 21k • written 13.0 years ago by ▴ 180
0
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1
reply
973
views
CDF for GeneChip miRNA 2 array - Is there a miRNA 3 CDF?
miRNA cdf miRNA cdf
updated 13.0 years ago by ★ 4.3k • written 13.0 years ago by ▴ 30
0
votes
1
reply
2.4k
views
simpleaffy() not recognizing cdf file
cdf simpleaffy cdf simpleaffy
updated 13.1 years ago by 68k • written 13.1 years ago by ★ 13k
0
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4
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2.3k
views
package ‘hugene10stv1’ is not available: problem in fitProbeLevelModel
Annotation cdf BiocInstaller Annotation cdf BiocInstaller
updated 13.1 years ago by ★ 4.3k • written 13.1 years ago by ▴ 290
0
votes
8
replies
3.3k
views
Error in setQCEnvironment(cdfn)
cdf cdf
updated 13.1 years ago by 68k • written 13.1 years ago by ▴ 290
0
votes
2
replies
2.9k
views
affy hugene 2.1 st
cdf cdf
updated 13.2 years ago by ★ 13k • written 13.2 years ago by ▴ 310
0
votes
3
replies
3.8k
views
Installation of XCMS / mzR failed
cdf xcms BiocInstaller cdf xcms BiocInstaller
updated 13.2 years ago by 68k • written 13.2 years ago by ▴ 20
0
votes
0
replies
1.3k
views
FARMS package (fwd)
Microarray Normalization cdf plier farms Microarray Normalization cdf plier farms
13.2 years ago Günter Klambauer ▴ 540
0
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0
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955
views
plier package
Normalization cdf plier Normalization cdf plier
13.3 years ago fire1976 wyoming ▴ 380
0
votes
2
replies
1.3k
views
CDF for GeneChip miRNA 2 array - Is there a miRNA 3 CDF?
miRNA Annotation cdf miRNA Annotation cdf
updated 13.3 years ago by 68k • written 13.3 years ago by ▴ 270
0
votes
0
replies
1.3k
views
affyPara - rmaPara fails using cdfname
Microarray cdf affyPara Microarray cdf affyPara
13.3 years ago Tobias Verbeke ▴ 50
0
votes
19
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4.9k
views
Analysis and annotation (full) of Affymetrix Mouse Exon 1.0 ST arrays
Annotation cdf Annotation cdf
updated 13.4 years ago by 68k • written 13.4 years ago by ▴ 340
0
votes
5
replies
1.8k
views
Wheat annotation
Annotation cdf AnnotationDbi Annotation cdf AnnotationDbi
updated 13.4 years ago by 68k • written 13.4 years ago by ★ 13k
0
votes
0
replies
2.2k
views
Analysis and annotation (full) of Affymetrix Mouse Exon 1.0 ST arrays
Annotation cdf Annotation cdf
13.4 years ago Andreas Heider ▴ 340
0
votes
2
replies
1.4k
views
Question about locked environments
cdf probe cdf probe
updated 13.4 years ago by 25k • written 13.4 years ago by ★ 2.0k
0
votes
5
replies
2.1k
views
Unable to perform GCRMA/RMA with cdf file 'mogene11stv1mmentrezgcdf'
Microarray Normalization cdf gcrma Microarray Normalization cdf gcrma
updated 13.4 years ago by 68k • written 13.4 years ago by ▴ 30
0
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0
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954
views
XPS package working with Affymetrix GeneChip 1.0 ST at gene level
cdf affy plier xps cdf affy plier xps
13.4 years ago cstrato ★ 3.9k
0
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3
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1.4k
views
XPS package working with Affymetrix GeneChip 1.0 ST at gene level
cdf affy xps cdf affy xps
updated 13.4 years ago by ★ 3.9k • written 13.4 years ago by ★ 13k
0
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4
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1.4k
views
frmaTools: error with 'convertPlatform'
cdf affy convert cdf affy convert
updated 13.4 years ago by ▴ 830 • written 13.4 years ago by ★ 4.1k
0
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1
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1.6k
views
Using BrainArray mappings with oligo package
Annotation cdf oligo Annotation cdf oligo
updated 13.4 years ago by ★ 4.3k • written 13.4 years ago by ▴ 600
0
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0
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661
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combining hgu133a and hgu133b
Cancer cdf Cancer cdf
13.5 years ago Steve Lianoglou ★ 13k
0
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0
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1.4k
views
Odd warning in simpleaffy, using quality control
cdf simpleaffy cdf simpleaffy
13.5 years ago ejulia ▴ 10
0
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8
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1.9k
views
How to generate an annotation library without CDF file?
Annotation cdf Annotation cdf
updated 13.5 years ago by ★ 4.3k • written 13.5 years ago by ▴ 40
0
votes
1
reply
1.9k
views
problems installing xcms package
cdf xcms cdf xcms
updated 13.6 years ago by ★ 8.2k • written 13.6 years ago by ▴ 360
0
votes
4
replies
1.8k
views
Question about hgu133plus2cdf?
hgu133plus2 cdf affy hgu133plus2 cdf affy
13.6 years ago Fabrice Tourre ▴ 970
0
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13
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3.0k
views
arrayQualityMetrics error and question
cdf arrayQualityMetrics cdf arrayQualityMetrics
updated 13.6 years ago by ★ 13k • written 13.6 years ago by ▴ 280
0
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1
reply
1.0k
views
Aroma query (Follow up to thread: \"Reading 5000 celfiles with ReadAffy\" )
cdf cdf
updated 13.7 years ago by ★ 2.4k • written 13.7 years ago by ★ 13k
0
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2
replies
2.2k
views
Odd warning in simpleaffy, using quality control
cdf probe simpleaffy ArrayExpress cdf probe simpleaffy ArrayExpress
updated 13.7 years ago by ▴ 280 • written 13.7 years ago by ▴ 740
0
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0
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1.5k
views
Odd warning in simpleaffy, using quality control
cdf simpleaffy ArrayExpress cdf simpleaffy ArrayExpress
13.7 years ago David Westergaard ▴ 280
0
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0
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1.4k
views
Updated affy package? ReadAffy/ AffyBatch has changed and breaks my pipeline!
Cancer cdf probe affy gcrma AnnotationDbi Cancer cdf probe affy gcrma AnnotationDbi
13.7 years ago Benjamin Otto ▴ 830
0
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1
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951
views
Experience with using the 'affy' package (v1.28.1) to perform QC on Affymetrix PrimeView human arrays
cdf cdf
updated 13.7 years ago by 68k • written 13.7 years ago by ▴ 10
0
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1
reply
1.0k
views
annotaion package
Microarray Annotation cdf Microarray Annotation cdf
updated 13.7 years ago by 21k • written 13.7 years ago by ▴ 20
0
votes
1
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943
views
Is anyone using affylmGUI for Affy Exon 1.0 analysis?
Normalization cdf affy limma PROcess Normalization cdf affy limma PROcess
updated 13.7 years ago by 68k • written 13.7 years ago by ▴ 50
0
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2
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1.5k
views
affy : ReadAffy() fails on HuGene-1_1-st-v1 chips
Microarray cdf affy makecdfenv PROcess oligo cycle Microarray cdf affy makecdfenv oligo
updated 13.8 years ago by 68k • written 13.8 years ago by ▴ 630
0
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0
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1.5k
views
How to make a custom cdf file?
Annotation cdf probe makecdfenv Annotation cdf probe makecdfenv
13.8 years ago Olivier Lucas ▴ 40
0
votes
1
reply
1.4k
views
ilumina CanineHD
cdf crlmm cdf crlmm
updated 13.8 years ago by ▴ 1000 • written 13.8 years ago by ▴ 10
0
votes
1
reply
2.4k
views
limma topTable with gene symbols in output: annotate problem
Annotation cdf probe annotate affy limma biomaRt Annotation cdf probe annotate affy
updated 13.8 years ago by ★ 7.2k • written 13.8 years ago by ▴ 290
0
votes
1
reply
1.2k
views
help
cdf xcms BiocInstaller cdf xcms BiocInstaller
updated 13.8 years ago by ★ 13k • written 13.8 years ago by ★ 13k
0
votes
0
replies
1.2k
views
Bioconductor Digest, Vol 106, Issue 21
SNP Microarray VariantAnnotation Annotation cdf probe affy limma PROcess oligo xps SNP
13.8 years ago Jing Huang ▴ 380
0
votes
1
reply
1.4k
views
Affymetrix Mouse Gene 1.0 ST - Number of probes
Annotation cdf probe Annotation cdf probe
updated 13.9 years ago by 68k • written 13.9 years ago by ★ 13k
0
votes
3
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1.7k
views
how to install gnGNF1a cdf and probe files to a recent version of R (2.13.1)?
Epigenetics cdf Epigenetics cdf
updated 13.9 years ago by 68k • written 13.9 years ago by ▴ 30
927 results • Page 3 of 19
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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…
Comment: Best practice for handling large data (matrix with >2^31-1 non-zero elements) in by James W. MacDonald 68k
Oh. ``` > z <- read10xCounts(c(tmpdir, tmpdir), mtx.class = "SVT_SparseMatrix", delayed = TRUE) > class(counts(z)) [1] "DelayedMatrix" att…
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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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