Showing : Affy • reset
3
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5
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Farms/Call.INI using oligo package?
probe affy oligo farms probe affy oligo farms
updated 11.9 years ago by ▴ 210 • written 11.9 years ago by ▴ 270
0
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1
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3.1k
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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 68k • written 11.9 years ago by ▴ 190
0
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3
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2.2k
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Summarisation in oligo package after exclusion of probes containing SNPs
probe affy oligo probe affy oligo
updated 11.9 years ago by ▴ 20 • written 11.9 years ago by ★ 13k
0
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1
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2.1k
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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 12.0 years ago by ▴ 190 • written 12.0 years ago by 68k
0
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7
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2.5k
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oligo package reading in cel files
affy affy
updated 12.0 years ago by 68k • written 12.0 years ago by ★ 13k
0
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2
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1.1k
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Coercing matrix into expression set, for normalization of only subsets of miRNAs (affy miRNA3.0)
miRNA affy miRNA affy
updated 12.0 years ago by 68k • written 12.0 years ago by ▴ 30
0
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1
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2.6k
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affy - Anotation of Afymetrix PrimeView chipe
cdf probe affy limma cdf probe affy limma
updated 12.0 years ago by 68k • written 12.0 years ago by ▴ 10
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2
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1.6k
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segfault ReadAffy cause 'memory not mapped'
Cancer hgu133plus2 affy PROcess Cancer hgu133plus2 affy PROcess
updated 12.0 years ago by ★ 1.2k • written 12.0 years ago by ▴ 70
0
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2
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5.4k
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Normalization before ComBat
Microarray Normalization probe affy frma Microarray Normalization probe affy frma
updated 12.0 years ago by ▴ 40 • written 12.0 years ago by ▴ 870
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0
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1.7k
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How does one deal with spatial effects detected on single channel microarrays?
Microarray Normalization hu6800 affy gcrma marray nnNorm Harshlight Microarray hu6800
12.0 years ago Scott Robinson ▴ 130
1
vote
1
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2.1k
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Mapping Affymetrix annotations with Bioconductor annotations
Annotation Organism zebrafish cdf affy AnnotationForge Annotation Organism zebrafish cdf
updated 12.0 years ago by 68k • written 12.0 years ago by ▴ 80
0
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6
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1.7k
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Limma vs GEE
affy limma affy limma
updated 12.0 years ago by 53k • written 12.0 years ago by ▴ 380
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2
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1.8k
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SCAN.UPC vs NUSE
affy affyPLM SCAN.UPC affy affyPLM SCAN.UPC
updated 12.1 years ago by ▴ 600 • written 12.1 years ago by ▴ 10
0
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0
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2.8k
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Importing quantile normalized .txt file to limma for differential expression
Normalization affy limma oligo xps Normalization affy limma oligo xps
12.1 years ago James W. MacDonald 68k
2
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1
reply
2.3k
views
RLE plot from expression dataset
affy affy
updated 12.1 years ago by ★ 3.9k • written 12.1 years ago by ▴ 120
0
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2
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2.9k
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RMA normalization for Affymetrix CEL Files (Subscript out of bounds error)
Normalization affy Normalization affy
12.1 years ago Gundala Viswanath ▴ 230
0
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0
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1.3k
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Human Transcriptome Array 2.0 chip
Microarray affy Microarray affy
12.1 years ago Guest User ★ 13k
0
votes
6
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2.1k
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How does one deal with spatial effects detected on single channel microarrays?
Microarray Normalization affy marray nnNorm Microarray Normalization affy marray nnNorm
updated 12.1 years ago by ★ 3.9k • written 12.1 years ago by ★ 13k
0
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1
reply
1.5k
views
XPS package QC data
affy arrayQualityMetrics xps affy arrayQualityMetrics xps
12.1 years ago cstrato ★ 3.9k
0
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3
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1.8k
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XPS package QC data
affy arrayQualityMetrics xps affy arrayQualityMetrics xps
updated 12.2 years ago by ★ 3.9k • written 12.2 years ago by ▴ 40
0
votes
9
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2.7k
views
RNA degradation plot with oligo package GeneFeatureSet objects
affy oligo affy oligo
updated 12.2 years ago by 68k • written 12.2 years ago by ▴ 360
0
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8
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3.2k
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Affy: probeset to gene expression with expresso
probe affy probe affy
updated 12.2 years ago by 68k • written 12.2 years ago by ▴ 50
0
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1
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1.4k
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答复: an error in AnnotationForge
Annotation ChipName annotate affy AnnotationForge Annotation ChipName annotate affy
12.2 years ago joseph ▴ 50
0
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1
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1.3k
views
an error in AnnotationForge
Annotation ChipName annotate affy AnnotationForge Annotation ChipName annotate affy
updated 12.2 years ago by ★ 7.2k • written 12.2 years ago by ▴ 50
0
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0
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838
views
Updated affy package? ReadAffy/ AffyBatch has change and breaks my pipeline!
cdf affy cdf affy
12.3 years ago elliot harrison ▴ 230
0
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0
replies
1.2k
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illumina microarray and affymetrix exon array data
Microarray affy Microarray affy
12.3 years ago Rao,Xiayu ▴ 550
0
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1
reply
509
views
RJpGene.1.0 and RCnGene.1.0 .CDF files
cdf affy cdf affy
updated 12.3 years ago by 68k • written 12.3 years ago by ★ 13k
0
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0
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922
views
Gene expression clustering using several dependent samples
Clustering affy Clustering affy
12.3 years ago Moritz Kebschull ▴ 100
0
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5
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2.1k
views
ERCC spike-in probes in
Microarray Normalization cdf affy Microarray Normalization cdf affy
updated 12.3 years ago by 68k • written 12.3 years ago by ★ 13k
2
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4
replies
3.2k
views
makePdInfoPackage for Primeview arrays
BiocViews Annotation Cancer Organism cdf probe affy biocViews BiocViews BiocViews Cancer
updated 12.3 years ago by ★ 3.9k • written 12.3 years ago by ▴ 140
0
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2
replies
1.4k
views
Reading Affy CEL files
annotate affy convert oligo annotate affy convert oligo
updated 12.4 years ago by ▴ 40 • written 12.4 years ago by ▴ 10
0
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1
reply
1.5k
views
Reading Affy CEL files
affy affy
updated 12.4 years ago by 68k • written 12.4 years ago by ★ 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 ★ 13k • written 12.4 years ago by ★ 13k
0
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1
reply
1.8k
views
SCAN-UPC: 12079 of 22283 probes returned for hgu133a CELs?
Normalization hgu133a probe affy PROcess SCAN.UPC Normalization hgu133a probe affy
updated 12.4 years ago by ▴ 20 • written 12.4 years ago by ▴ 600
0
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4
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1.7k
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Queries about getting annotation post-Limma analysis
Normalization affy limma biomaRt oligo Normalization affy limma biomaRt oligo
updated 12.4 years ago by ▴ 750 • written 12.4 years ago by ▴ 180
0
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1
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1.3k
views
Add new affy organism platform
Microarray Annotation Organism cdf db0 probe annotate affy Microarray Annotation cdf
updated 12.4 years ago by ★ 7.2k • written 12.4 years ago by ▴ 50
0
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4
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1.8k
views
error using frma() with brainarray CDFs
cdf affy cdf affy
updated 12.5 years ago by ▴ 830 • written 12.5 years ago by ▴ 100
0
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3
replies
1.0k
views
Add new affy organism platform
Annotation affy Annotation affy
updated 12.5 years ago by ★ 7.2k • written 12.5 years ago by ▴ 50
0
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0
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1.3k
views
Normalizing a dataset from GEO to suit a classifier trained on another dataset
Microarray Normalization Preprocessing probe affy preprocessCore frma Microarray probe
12.5 years ago Matthew McCall ▴ 830
0
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0
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1.8k
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Useful information about Ensembl release 71 mart databases
zebrafish PolyPhen SIFT affy genomes zebrafish PolyPhen SIFT affy genomes
12.5 years ago Thomas Maurel ▴ 800
0
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4
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2.3k
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Problem with Limma - Possible Limma/affy bug - minimal code not working
Normalization affy limma convert Normalization affy limma convert
updated 12.5 years ago by 68k • written 12.5 years ago by ▴ 30
0
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1
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1.4k
views
fRMA for Gene ST arrays
affy oligo frma ASSIGN affy oligo frma ASSIGN
updated 12.5 years ago by ▴ 830 • written 12.5 years ago by ▴ 100
0
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0
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1.2k
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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
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0
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1.7k
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identifying drosophila miRNA targets
miRNA drosophila2 probe affy convert affycoretools microRNA miRNA drosophila2 probe affy
12.5 years ago Fiona ▴ 70
0
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4
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1.5k
views
identifying drosophila miRNA targets
miRNA affy microRNA miRNA affy microRNA
updated 12.5 years ago by 68k • written 12.5 years ago by ▴ 70
0
votes
2
replies
1.6k
views
ChIPpeakAnno query
Microarray Annotation Cancer Prostate annotate affy convert biomaRt ChIPpeakAnno Cancer
updated 12.6 years ago by ▴ 10 • written 12.6 years ago by ★ 4.3k
0
votes
1
reply
1.7k
views
SCAN-UPC: 12079 of 22283 probes returned for hgu133a CELs?
hgu133a probe affy SCAN.UPC hgu133a probe affy SCAN.UPC
updated 12.6 years ago by ▴ 20 • written 12.6 years ago by ▴ 600
0
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1
reply
1.3k
views
merging of Affy U133A and U133B
affy affy
updated 12.6 years ago by 21k • written 12.6 years ago by ▴ 50
0
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0
replies
1.1k
views
normalize data in raster file
affy affy
12.6 years ago Erick Okuto ▴ 10
0
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1
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2.5k
views
Bioconductor Digest, Vol 120, Issue 12
Microarray qPCR Coverage Annotation Pathways Visualization Cancer Breast Organism affy
12.6 years ago Matthew Thornton ▴ 380
1,805 results • Page 6 of 37
Recent ...
Replies
Comment: Help with defining groups by Phinney, Brett ▴ 10
I got it working , thank you!!!
Comment: Check removeBatchEffect effectiveness by massimo • 0
I would kindly ask for additional support. When not including the design_timepoint argument in removeBatchEffect and thus keeping the inter…
Comment: Error Loading Experiment from SimBenchData Package by ksankaran • 0
Aha, that was it! The object was class Seurat, but I didn't have it installed. After installing, everything works as expected.
Comment: Streamlining the computing time for MiloDE p-value correction in large dataset? by ATpoint ★ 5.0k
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 ★ 5.0k
Outliers without replacement, independent filtering or all-zero counts for that gene. That's the three options that trigger NAs https://bio…
Votes
Comment: Check removeBatchEffect effectiveness
Gene expression associated with continuous (quantitative) traits (Limma/edgeR/correlation)
Answer: Error Loading Experiment from SimBenchData Package
Comment: incomplete imputation of missing values with LEA impute() function
Answer: Expected memory usage for analyzing large single-cell seq datasets (> 450,000 ce
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