Showing : microarray • reset
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Help with choice of normalization
Microarray Normalization GO microRNA Microarray Normalization GO microRNA
13.4 years ago Ali Mohammadian ▴ 290
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2
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1.3k
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correlation coefficient for microarray biological replicates
Microarray Microarray
updated 13.4 years ago by 21k • written 13.4 years ago by ▴ 60
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Limma: how to obtain P values using method "global" for multiple testing
Microarray Microarray
updated 13.4 years ago by 53k • written 13.4 years ago by ▴ 30
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Limma: how to obtain P values using method "global" for multiple testing
Microarray limma Microarray limma
updated 13.4 years ago by ▴ 30 • written 13.4 years ago by ▴ 10
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890
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adding channels to beadarray ExpressionSetIllumina class to log transform beadsummary data
Microarray Microarray
13.4 years ago Guest User ★ 13k
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How can I identify the closest transcript from a chromosome coordinate?
Microarray Genetics probe charm Microarray Genetics probe charm
13.4 years ago Yoo, Seungyeul ▴ 110
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3
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Antw: Re: limma voom: How to create double contrasts?
Microarray edgeR Microarray edgeR
updated 13.4 years ago by ▴ 40 • written 13.4 years ago by 68k
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1.1k
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Problem producing imageplot for Agilent data
Microarray Microarray
13.4 years ago Guest User ★ 13k
1
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765
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microarray box-plot
Microarray Microarray
13.4 years ago jiqiang yao ▴ 20
2
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5
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31k
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Row labels in a heatmap
Microarray Microarray
updated 13.4 years ago by 68k • written 13.4 years ago by ▴ 60
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1.3k
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affyPara - rmaPara fails using cdfname
Microarray cdf affyPara Microarray cdf affyPara
13.4 years ago Tobias Verbeke ▴ 50
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2
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1.7k
views
two channel data normalization limma
Microarray Normalization limma Microarray Normalization limma
updated 13.4 years ago by ★ 13k • written 13.4 years ago by ▴ 30
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1
reply
3.6k
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Error using impute.knn function
Microarray Normalization impute Microarray Normalization impute
13.4 years ago Peter Davidsen ▴ 210
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2
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goTools: Error in goidvect[test] : invalid subscript type \'list\'
Transcription Microarray Annotation GO goTools Transcription Microarray Annotation GO
updated 13.4 years ago by 68k • written 13.4 years ago by ★ 13k
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1
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1.8k
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Producing MA plots for single channel agilent data
Microarray Normalization Microarray Normalization
updated 13.4 years ago by 53k • written 13.4 years ago by ★ 13k
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865
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Merging two tilingfeaturesets into one set.
Microarray Genetics Annotation Microarray Genetics Annotation
13.4 years ago Yoo, Seungyeul ▴ 110
1
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12
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14k
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Using limma for quantitative proteomics data
Microarray Proteomics limma Microarray Proteomics limma
13.5 years ago • updated 13.4 years ago Yong Li ▴ 80
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1
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1.0k
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Loading ArrayVision microarray data into Limma
Microarray limma Microarray limma
updated 13.4 years ago by 53k • written 13.4 years ago by ▴ 30
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881
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Bioc2012 : July 24-25
Microarray Microarray
13.4 years ago Valerie Obenchain ★ 6.8k
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1
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2.8k
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Annotation Database for Agilent 8x60K Human Gene Expression Arrays
Microarray Annotation Agi4x44PreProcess Microarray Annotation Agi4x44PreProcess
updated 13.5 years ago by ★ 7.2k • written 13.5 years ago by ▴ 200
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affyPara - rmaPara fails using cdfname
Microarray affyPara Microarray affyPara
13.5 years ago Wetzels, Yves [JRDBE Extern] ▴ 10
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2
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1.1k
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How to print out normalized Cy5 and Cy3 signals
Microarray limma Microarray limma
updated 13.5 years ago by ▴ 130 • written 13.5 years ago by ▴ 10
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1
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1.2k
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Problem in filtering of single color microarrray data using LIMMA
Microarray Preprocessing limma PROcess Microarray Preprocessing limma PROcess
updated 13.5 years ago by ▴ 130 • written 13.5 years ago by ▴ 60
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1
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1.2k
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problems with annotation package (error in AnnotationDbi v1.18.1 ?)
Microarray Annotation AnnotationDbi Microarray Annotation AnnotationDbi
updated 13.5 years ago by ★ 7.2k • written 13.5 years ago by ▴ 330
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0
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1.5k
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Scaling color range of heatmap.2 with scaled row option
Microarray Genetics Clustering Microarray Genetics Clustering
13.5 years ago Yoo, Seungyeul ▴ 110
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798
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factorial designs in limma
Microarray Microarray
13.5 years ago Michael Rooney ▴ 10
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5
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3.7k
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design matrix Limma design for paired t-test
Microarray Microarray
updated 13.5 years ago by ▴ 130 • written 13.5 years ago by ▴ 60
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Mapping genes to their gene sets for GSEA
Microarray Genetics GO hgu95av2 hgug4112a Microarray Genetics GO hgu95av2 hgug4112a
13.5 years ago Yoo, Seungyeul ▴ 110
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2.1k
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Unable to perform GCRMA/RMA with cdf file 'mogene11stv1mmentrezgcdf'
Microarray Normalization cdf gcrma Microarray Normalization cdf gcrma
updated 13.5 years ago by 68k • written 13.5 years ago by ▴ 30
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961
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BioPAX/SBPAX import for MicroArray Analysis and Hypothesis Building
Microarray Network Microarray Network
13.5 years ago Oliver Ruebenacker ▴ 110
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1
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993
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BioPAX/SBPAX import for MicroArray Analysis and Hypothesis Building
Microarray Pathways Network Microarray Pathways Network
updated 13.5 years ago by ★ 4.2k • written 13.5 years ago by ▴ 110
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1
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4.5k
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File format for single channel analysis of Agilent microarray data with Limma?
Microarray probe Microarray probe
updated 13.5 years ago by ▴ 40 • written 13.5 years ago by 53k
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743
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How to identify DE genes by comparing two groups where one contains a single array data
Microarray limma Microarray limma
13.5 years ago Guest User ★ 13k
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1.6k
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technical and biological replicates in the same Exprset - Agi4x44
Microarray Normalization Microarray Normalization
13.5 years ago Gordon Smyth 53k
0
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1
reply
1.1k
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technical and biological replicates in the same Exprset - Agi4x44
Microarray Normalization Microarray Normalization
updated 13.5 years ago by ▴ 10 • written 13.6 years ago by 53k
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1.7k
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design and contrast matrix for limma time series without replicates
Microarray GO Regression limma Microarray GO Regression limma
13.5 years ago Chunxuan Shao ▴ 30
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984
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Help with adSplit package
Microarray GO Clustering adSplit Microarray GO Clustering adSplit
13.6 years ago Luz Mayela Soto ▴ 10
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1.8k
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error running makeProbePackage
Microarray probe Microarray probe
updated 13.6 years ago by 68k • written 13.6 years ago by ▴ 80
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3
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2.2k
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How can I remove control probesets from the expressionset object in gene expression analysis with Affy Human Gene 1.0ST microarray
Microarray Annotation Normalization GO probe genefilter affy limma oligo Microarray GO
updated 13.6 years ago by ▴ 190 • written 13.6 years ago by 68k
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[Bioc-devel] technical and biological replicates in the same Exprset - Agi4x44
Microarray Normalization Microarray Normalization
13.6 years ago James W. MacDonald 68k
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1
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1.4k
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How can I remove control probesets from the expressionset object in gene expression analysis with Affy Human Gene 1.0ST microarray
Microarray Normalization probe genefilter limma oligo Microarray Normalization probe
updated 13.6 years ago by 68k • written 13.6 years ago by ▴ 190
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2.9k
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gene set enrichment analysis of RNA-Seq data
Microarray limma GLAD edgeR goseq Microarray limma GLAD edgeR goseq
13.6 years ago Paolo Guarnieri ▴ 20
2
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5
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4.5k
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gene set enrichment analysis of RNA-Seq data
Microarray goseq Microarray goseq
updated 13.6 years ago by 53k • written 13.6 years ago by ▴ 110
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1
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1.1k
views
Problem in analysing Agilent single color data using LIMMA
Microarray limma Microarray limma
updated 13.6 years ago by 68k • written 13.6 years ago by ▴ 60
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5
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1.6k
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Selected probes from a given probeset
Microarray SANTA Microarray SANTA
13.6 years ago Ramiro Rodríguez ▴ 30
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4
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1.8k
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design matrix with technical and biologial replicates
Microarray limma Microarray limma
updated 13.6 years ago by 68k • written 13.6 years ago by ▴ 70
0
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3
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881
views
Difficulty with limma contrast matrix creation
Microarray limma Microarray limma
updated 13.7 years ago by 68k • written 13.7 years ago by ★ 13k
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1
reply
2.9k
views
Mas5 log transformed data
Microarray Normalization simpleaffy Microarray Normalization simpleaffy
updated 13.7 years ago by 68k • written 13.7 years ago by ★ 13k
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1.5k
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Bioconductor 2.10 is released
Transcription Sequencing Microarray Annotation Normalization Visualization Network Bayesian
13.7 years ago Dan Tenenbaum ★ 8.2k
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1.3k
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Help with lumi R package
Microarray lumi Microarray lumi
13.7 years ago Minyue Wang ▴ 10
2,319 results • Page 19 of 47
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Answer: problem reading bam files into nucleR by James W. MacDonald 68k
The first step is to update to the current versions of R/Bioconductor and try again. It's possible that you have run into a bug that's alre…
Answer: 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
Votes
Upcoming Ensembl API and data access changes - new blog post available
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
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