Showing : vsn • reset
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Single channel spike in controls with custom microRNA slides - Normalization help needed
Normalization vsn Normalization vsn
16.6 years ago David ▴ 860
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Nomalization using spike-in controls in single channel arrays using limma
Normalization vsn Normalization vsn
16.6 years ago David ▴ 860
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1.2k
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problem with createBeadSummaryData
Normalization vsn Normalization vsn
updated 16.6 years ago by ★ 1.1k • written 16.6 years ago by ▴ 630
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SAM warning
Biophysics Alignment Annotation Normalization Cancer hgu133plus2 probe affy vsn MBCB vsn
16.7 years ago elliot harrison ▴ 230
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Filtering before differential expression analysis of microarrays - New paper out
Biophysics Normalization affy vsn Biophysics Normalization affy vsn
16.7 years ago Steve Lianoglou ★ 13k
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942
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(no subject)
Microarray Normalization GO probe vsn limma Microarray Normalization GO probe vsn limma
16.7 years ago Gordon Smyth 53k
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2
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Can't load annotations with lumi
Microarray OneChannel Annotation Normalization probe Biobase annotate genefilter affy vsn
updated 16.9 years ago by ★ 1.2k • written 16.9 years ago by ▴ 280
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807
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tilingArray question
vsn vsn
updated 16.9 years ago by ★ 13k • written 16.9 years ago by ▴ 90
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Normalization of Agilent miRNA arrays using spike-ins
miRNA Normalization Preprocessing vsn limma miRNA Normalization Preprocessing vsn limma
updated 16.9 years ago by ★ 13k • written 17.0 years ago by ▴ 60
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Detection of differential expression using limma
Microarray Normalization vsn limma Microarray Normalization vsn limma
updated 17.0 years ago by ▴ 10 • written 17.0 years ago by ▴ 60
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2
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installing problem - preprocessCore, affy on linux platform
Biobase genefilter affy vsn gcrma matchprobes preprocessCore Biobase genefilter affy vsn
updated 17.1 years ago by ★ 6.5k • written 17.1 years ago by ▴ 20
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Ringo: Error in preprocess() with R-2.7.0, but not with R-2.5.0
probe annotate geneplotter affy vsn Ringo probe annotate geneplotter affy vsn Ringo
updated 17.3 years ago by ▴ 730 • written 17.3 years ago by ▴ 110
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Agilent single color array
Normalization Preprocessing vsn limma Normalization Preprocessing vsn limma
updated 17.3 years ago by ★ 6.5k • written 17.3 years ago by ▴ 400
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Agilent single color array
Normalization Preprocessing vsn limma Normalization Preprocessing vsn limma
updated 17.3 years ago by 21k • written 17.3 years ago by ★ 6.5k
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1.4k
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Normalization Recommendations- severe biological variation (from the digest)
Normalization vsn plier Normalization vsn plier
updated 17.3 years ago by ★ 6.0k • written 17.3 years ago by ▴ 20
1
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Normalization Recommendations- severe biological variation
Normalization vsn Normalization vsn
17.3 years ago Siobhan A. Braybrook ▴ 60
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1.2k
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Input to vsn or limma of genepix file missing 635 columns
Annotation Normalization Biobase affy vsn limma marray convert Annotation Normalization
updated 17.4 years ago by ▴ 30 • written 17.4 years ago by 53k
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Removing control probes and treating technical replicates in Agilent one colour data
Microarray GO vsn limma Microarray GO vsn limma
17.5 years ago eldridb@stud.ntnu.no ▴ 10
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948
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row.names in the latest vsn
probe vsn probe vsn
updated 17.5 years ago by ▴ 110 • written 17.5 years ago by ★ 13k
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1.3k
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running vsn from Limma
vsn limma vsn limma
updated 17.5 years ago by ▴ 730 • written 17.5 years ago by ▴ 20
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933
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Update vsn: http://www.bioconductor.org/packages/devel/bioc/html/vsn.html
vsn vsn
17.5 years ago Roumyana Yordanova ▴ 110
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1.4k
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vsn with a reference set
vsn PROcess vsn PROcess
updated 17.5 years ago by ★ 13k • written 17.5 years ago by ▴ 110
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812
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Working with the vsn object
vsn vsn
updated 17.5 years ago by ★ 13k • written 17.6 years ago by ▴ 490
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791
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A couple VSN related questions
GO Kidney vsn GO Kidney vsn
17.7 years ago Wolfgang Huber ★ 13k
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2
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883
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A couple VSN related questions
Kidney vsn Kidney vsn
updated 17.7 years ago by ★ 13k • written 17.7 years ago by ▴ 20
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custom affylmGUI menus
Normalization vsn affylmGUI Normalization vsn affylmGUI
17.9 years ago Stefanie De Bodt ▴ 10
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731
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VSN: narrowing down probe sets for parameter estimation
Microarray probe vsn Microarray probe vsn
updated 18.0 years ago by ★ 13k • written 18.0 years ago by ▴ 50
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combining data from two R arrays
GO Survival annotate genefilter vsn tilingArray GO Survival annotate genefilter vsn
18.0 years ago Richard Harrison ▴ 70
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2.2k
views
Agilent 4x44 single color expression arrays
Normalization probe vsn limma gcrma Normalization probe vsn limma gcrma
18.0 years ago Ido M. Tamir ▴ 320
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804
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vsn and scaling
Normalization vsn Normalization vsn
18.0 years ago Wolfgang Huber ★ 13k
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1.1k
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predict vsn with reference
Microarray affy vsn limma affyio Microarray affy vsn limma affyio
updated 18.0 years ago by ★ 13k • written 18.0 years ago by ▴ 10
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vsm2
Survival geneplotter affy vsn limma affyio Survival geneplotter affy vsn limma affyio
updated 18.0 years ago by ★ 13k • written 18.0 years ago by ▴ 70
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1.2k
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batch effects and VSN
Normalization Regression vsn limma oligo Normalization Regression vsn limma oligo
updated 18.0 years ago by ★ 13k • written 18.0 years ago by ▴ 330
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1.0k
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Problem with "as.matrix.vsn" and "duplicateCorrelation" fromlimma
vsn vsn
updated 18.1 years ago by ★ 13k • written 18.1 years ago by 53k
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1.8k
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Limma: Very high logFC values
Preprocessing probe vsn limma Preprocessing probe vsn limma
18.1 years ago Gordon Smyth 53k
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1.5k
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globaltest - multinomial model
Survival affy vsn limma globaltest affyio Survival affy vsn limma globaltest affyio
updated 18.1 years ago by ▴ 150 • written 18.1 years ago by ▴ 330
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Reading Agilent files using read.maimages
Survival DynDoc genefilter tkWidgets affy vsn marray convert ArrayExpress Survival affy
updated 18.1 years ago by ▴ 20 • written 18.1 years ago by ▴ 100
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1.2k
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Needed help on maanova fitmaanova function
affy vsn limma maanova affyio affy vsn limma maanova affyio
18.2 years ago Marcelo Laia ▴ 450
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Using Ringo
Normalization vsn convert Ringo Normalization vsn convert Ringo
18.2 years ago Joern Toedling ▴ 730
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759
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vsn2 - update
vsn vsn
18.3 years ago Wolfgang Huber ★ 13k
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3
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1.2k
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vsn2 bug?
Microarray Normalization vsn Microarray Normalization vsn
updated 18.4 years ago by ★ 13k • written 18.4 years ago by ▴ 430
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4
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1.5k
views
VSN 2.2
Normalization vsn Normalization vsn
updated 18.4 years ago by ★ 13k • written 18.4 years ago by ▴ 330
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getting hist(abatch) results for exprset
Normalization affy vsn Normalization affy vsn
updated 18.5 years ago by 21k • written 18.5 years ago by ▴ 80
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783
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bioc-announce: vsn 2
Classification vsn Classification vsn
18.5 years ago Wolfgang Huber ★ 13k
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704
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expression sets with probe names
probe vsn probe vsn
updated 18.6 years ago by ★ 13k • written 18.6 years ago by ▴ 80
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1
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1.1k
views
Normalization in davidTiling demo
Normalization GO Survival Biobase genefilter geneplotter affy vsn PROcess tilingArray GO
updated 18.6 years ago by ★ 13k • written 18.6 years ago by ★ 1.3k
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1.2k
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What is a good method for analyzing differential expression from Illumina BeadStudio summary data?
Normalization GO affy vsn limma beadarray lumi Normalization GO affy vsn limma lumi
18.6 years ago Gordon Smyth 53k
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1
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1.2k
views
Normalization in davidTiling demo
Normalization GO Survival genefilter geneplotter affy vsn tilingArray affyio GO Survival
updated 18.6 years ago by ★ 13k • written 18.6 years ago by ★ 1.3k
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872
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Comparing to background
Organism vsn limma Organism vsn limma
18.8 years ago Wolfgang Huber ★ 13k
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958
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Comparing to background
Organism vsn limma Organism vsn limma
18.9 years ago Sturgill, David NIH/NIDDK [C] ▴ 10
172 results • Page 2 of 4
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Answer: Gatins Set error by James W. MacDonald 68k
`GatingSet` isn't a function in `flowCore`. It is however in `flowWorkspace`, which you would need to load first.
Answer: How to model DE for RNA-seq in concordant monozygotic twins? by Gordon Smyth 53k
Your question is more about science than it is about software syntax, and I can't give advice about how to conduct a scientific analysis, n…
Comment: incomplete imputation of missing values with LEA impute() function by Gordon Smyth 53k
Nadia, please tag your question with the name of the package ("LEA") that you are asking about. "impute" is the name of a different Biocond…
Comment: Sharing a collection of datasets in ExperimentHub by Aaron Lun ★ 29k
FYI the **scRNAseq** packages uses a non-ExperimentHub storage platform, see [here](https://github.com/ArtifactDB/gypsum-worker) for more d…
Comment: Error Loading Experiment from SimBenchData Package by ATpoint ★ 4.9k
Is the Seurat package installed? The error somewhat suggests that it could be related, and at https://www.bioconductor.org/packages/release…
Votes
Comment: incomplete imputation of missing values with LEA impute() function
Answer: Expected memory usage for analyzing large single-cell seq datasets (> 450,000 ce
Answer: ordinary t from limma [was: How would I normally compare swirl?]
Comment: readDNAStringSet with non DNA characters
Comment: Guidance on limma for pseudobulk scRNA-seq with multi-factor design
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