Showing : affy • reset
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Affy PhenoData
affy limma affy limma
updated 13.6 years ago by 68k • written 13.6 years ago by ▴ 180
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4
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4.2k
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exprs() in Bioc 2.10
probe affy oligo probe affy oligo
updated 13.6 years ago by ★ 4.3k • written 13.6 years ago by ▴ 30
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546
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PhenoData
affy affy
updated 13.6 years ago by 21k • written 13.6 years ago by ▴ 180
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Affy data analysis
Pathways GO affy Pathways GO affy
updated 13.6 years ago by 68k • written 13.6 years ago by ▴ 180
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3
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998
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normalizing only 2 affy samples
affy affy
updated 13.6 years ago by 68k • written 13.6 years ago by ▴ 360
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1.8k
views
DNAcopy for CNV in SNP Affy 6.0
SNP affy DNAcopy SNP affy DNAcopy
13.6 years ago Ekta Jain ▴ 370
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4
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Copy number analysis
SNP affy SNP affy
updated 13.6 years ago by ▴ 210 • written 13.6 years ago by ★ 13k
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Copy number analysis
SNP affy VanillaICE SNP affy VanillaICE
13.6 years ago Rob Scharpf ▴ 250
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4
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1.8k
views
Question about hgu133plus2cdf?
hgu133plus2 cdf affy hgu133plus2 cdf affy
13.6 years ago Fabrice Tourre ▴ 970
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2
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8.3k
views
LIMMA - summarization of Illumina probes for same gene
probe affy limma beadarray probe affy limma beadarray
updated 13.7 years ago by ▴ 180 • written 13.7 years ago by 53k
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5
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how to rank affy probesets by their probe-effect magnitude
probe affy affyPLM probe affy affyPLM
updated 13.7 years ago by 68k • written 13.7 years ago by ★ 3.4k
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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
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10
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2.3k
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Reading 5000 celfiles with ReadAffy
affy affy
updated 13.7 years ago by ▴ 110 • written 13.7 years ago by ★ 13k
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948
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
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1
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1.3k
views
Microarray: correlation and Rgraphviz
affy Rgraphviz affy Rgraphviz
updated 13.8 years ago by 25k • written 13.8 years ago by ▴ 10
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13
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2.7k
views
Loading quantiles normalized root data in XPS
probe affy xps probe affy xps
updated 13.8 years ago by ★ 3.9k • written 13.8 years ago by ★ 1.3k
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[Rocky] - R code for PGSEA package to identify differentially expressed genes
GO affy limma GLAD PGSEA GSEABase GO affy limma GLAD PGSEA GSEABase
13.8 years ago Valerie Obenchain ★ 6.8k
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1.5k
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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
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1
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821
views
Saureus.db Files
probe affy probe affy
updated 13.8 years ago by 6.7k • written 13.8 years ago by ▴ 200
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1
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1.1k
views
[Rocky] - LIMMA to identify deferentially expressed genes
affy limma GLAD affy limma GLAD
updated 13.8 years ago by 21k • written 13.8 years ago by ▴ 30
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4
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2.0k
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Summarizing two-channel data (RGList, MAList) for limma analysis
Normalization probe affy Normalization probe affy
updated 13.8 years ago by ▴ 90 • written 13.8 years ago by ▴ 290
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1
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2.4k
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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
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1
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936
views
Saureus Affy Chip
probe affy limma convert probe affy limma convert
updated 13.8 years ago by ★ 7.2k • written 13.8 years ago by ▴ 200
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2
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1.3k
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RMA normalisation of test microarray data to training data
Microarray GO Cancer affy Microarray GO Cancer affy
updated 13.8 years ago by 68k • written 13.8 years ago by ★ 1.9k
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1
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2.1k
views
PFAM gene enrichment test using GOstats and Category
SNP Annotation GO Organism affy GOstats Category SNP Annotation GO Organism affy
updated 13.8 years ago by ▴ 350 • written 13.8 years ago by ▴ 10
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Bioconductor Digest, Vol 107, Issue 1
SNP Annotation probe affy biomaRt IRanges SNP Annotation probe affy biomaRt IRanges
13.8 years ago Peter Haverty ▴ 20
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mapping snp array probe to a gene, biomaRt or others?
Annotation probe affy Annotation probe affy
13.9 years ago Xiaokuan Wei ▴ 230
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Bioconductor Digest, Vol 106, Issue 21
SNP Microarray VariantAnnotation Annotation cdf probe affy limma PROcess oligo xps SNP
13.9 years ago Jing Huang ▴ 380
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how to analyze
affy microRNA affy microRNA
13.9 years ago Adrian Johnson ▴ 330
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2
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1.7k
views
arrayQualityMetrics subscript out of bounds error and Harshlight error
affy Harshlight affy Harshlight
updated 13.9 years ago by ★ 13k • written 13.9 years ago by ▴ 180
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1
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762
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Probe level normalization
Normalization probe affy limma Normalization probe affy limma
updated 13.9 years ago by 68k • written 13.9 years ago by ▴ 40
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3
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1.2k
views
solution for affy human 500k mapping snp array
SNP affy SNP affy
updated 14.0 years ago by 6.7k • written 14.0 years ago by ▴ 230
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1
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1.1k
views
Affy U133 array CEL files - how can i see individual probe signals?
probe affy probe affy
updated 14.0 years ago by 21k • written 14.0 years ago by ★ 13k
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830
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\"normalize a subset of affy data\" AND \"R help function\"
Normalization affy Normalization affy
14.0 years ago boczniak767 ▴ 740
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\"normalize a subset of affy data\" AND \"R help function\"
affy affy
14.0 years ago Guest User ★ 13k
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4
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1.4k
views
MA plots for large number of arrays
affy affyPLM beadarray lumi affy affyPLM beadarray lumi
updated 14.0 years ago by ▴ 740 • written 14.0 years ago by ▴ 360
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4
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1.0k
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Identifying the genome sequence of an affy probe
probe affy probe affy
updated 14.0 years ago by 68k • written 14.0 years ago by ▴ 20
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1
reply
928
views
miRNA 2.0 Array, Annotation Files how to use it after rma and readaffy
miRNA Annotation affy miRNA Annotation affy
updated 14.0 years ago by 21k • written 14.0 years ago by ★ 13k
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3
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1.4k
views
Manual creation of Affybatch object to study highthrouput qPCR experiments.
miRNA qPCR affy miRNA qPCR affy
updated 14.0 years ago by ▴ 300 • written 14.1 years ago by ★ 13k
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0
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931
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Erros in crlmm Re: SNP 6 chip
SNP Sequencing affy oligo xps crlmm SNP Sequencing affy oligo xps crlmm
14.0 years ago Benilton Carvalho ★ 4.3k
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7
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1.7k
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SNP 6 chip
SNP Sequencing affy SNP Sequencing affy
updated 14.1 years ago by 68k • written 14.1 years ago by ▴ 210
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1
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1.2k
views
\'mirna20probe
miRNA affy gcrma miRNA affy gcrma
updated 14.1 years ago by 68k • written 14.1 years ago by ★ 13k
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1.5k
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feature filter for GENE Chip miRNA 2.0 array
Annotation affy Annotation affy
14.1 years ago Guest User ★ 13k
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2
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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 14.1 years ago by 68k • written 14.1 years ago by ★ 13k
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0
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1.1k
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input agilent single-channel data (using limma package)
affy limma affy limma
14.1 years ago Gordon Smyth 53k
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0
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7.6k
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a question about input agilent single-channel data to R ( using limma package). Thanks for your kind help.
affy affy
14.1 years ago liuyang zhao ▴ 20
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1
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1.2k
views
how to get probe ids??
Microarray probe affy Microarray probe affy
updated 14.1 years ago by 68k • written 14.1 years ago by ▴ 40
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3
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1.6k
views
limma: paired analysis & effects on/interpretation of coefficients
GO affy limma GO affy limma
updated 14.2 years ago by 68k • written 14.2 years ago by ★ 4.1k
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4
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2.5k
views
How to merge to two cel objects imported by oligo package
affy oligo affy oligo
updated 14.2 years ago by ★ 4.3k • written 14.2 years ago by ▴ 60
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2
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2.0k
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
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Comment: Highly DE genes but small count difference within conditions by shy.hippopotamus.yxmb • 0
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Comment: Highly DE genes but small count difference within conditions by shy.hippopotamus.yxmb • 0
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Comment: copy number/LOH for Affy 100K by igkryycpinmshzugby • 0
Hi John For copy number and LOH analysis from Affymetrix 100K SNP arrays you can use aroma.affymetrix or CRLMM packages in Bioconductor. …
Comment: Integration: Paired-end vs healthy single-end from a different source by igkryycpinmshzugby • 0
Yes, Option 1 (technical homogenization) reprocessing paired-end samples as single-end using only R1 is the most defensible approach when l…
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Bioconductor 3.22 Released!
Bioconductor 3.22 Released!
Comment: "Watched Tags" are being erased rather than updated
Comment: deseq2 filter the low counts
Answer: DESeq2 interactions
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