Showing : biocViews • reset
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qvalues installation
biocViews
3.8 years ago jdorgan • 0
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2
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1.3k
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Error in DESeq2 Unmix() function: L-BFGS-B needs finite values of 'fn'
deseq2 biocViews
6.4 years ago • updated 2 days ago JennyS • 0
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1.3k
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Question about sumbition process and biocviews
biocviews biocparallel github package submission
updated 8.1 years ago by 25k • written 8.1 years ago by ▴ 30
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1
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1.2k
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How to suggest BiocViews tags for an existing package?
biocviews champ
9.2 years ago Peter Hickey ▴ 740
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2
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4.0k
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Bioconductor 2.12 is released
BiocViews aCGH SNP Transcription Sequencing Microarray Coverage Alignment Annotation GO
updated 9.4 years ago by • 0 • written 11.6 years ago by ★ 8.2k
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2
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pdInfoBuilder fails on Affy's GeneChip Human Transcriptome Array 2.0
BiocViews Annotation Organism biocViews oligo oligoClasses BiocViews BiocViews Annotation
updated 9.5 years ago by ▴ 20 • written 10.8 years ago by ▴ 40
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3
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2.6k
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Probeset/Transcript cluster definitions for HTA2.0 using pdInfoBuilder
BiocViews Annotation Organism biocViews pdInfoBuilder BiocViews BiocViews Annotation
updated 10.2 years ago by 67k • written 10.2 years ago by ▴ 40
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2.3k
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Affymetrix HTA 2 array analysis
BiocViews Annotation Cancer Breast Organism PROcess biocViews pdInfoBuilder BiocViews
10.6 years ago Elena Serrano ▴ 30
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0
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4.3k
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Bioconductor 2.14 is released
BiocViews aCGH SNP Sequencing RNASeq ChIPSeq miRNA Microarray qPCR Metabolomics Coverage
10.6 years ago Dan Tenenbaum ★ 8.2k
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0
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3.6k
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Affymetrix HTA 2 array analysis
BiocViews Annotation Cancer Breast Organism PROcess biocViews pdInfoBuilder BiocViews
10.8 years ago Elena Serrano ▴ 30
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5
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2.1k
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Complete variant toolbox: gmapR/VariantTools/VariantAnnotation
BiocViews VariantAnnotation Annotation biocViews Rsubread VariantAnnotation gmapR BiocViews
11.0 years ago • updated 10.9 years ago Thomas Girke ★ 1.7k
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1
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2.2k
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Affymetrix HTA 2 array analysis
BiocViews Annotation Cancer Breast Organism PROcess biocViews pdInfoBuilder BiocViews
updated 11.0 years ago by ★ 4.3k • written 11.0 years ago by ▴ 290
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0
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4.3k
views
Bioconductor 2.13 is released
BiocViews aCGH SNP Transcription Sequencing miRNA Microarray Genetics Proteomics Coverage
11.1 years ago Dan Tenenbaum ★ 8.2k
2
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4
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2.9k
views
makePdInfoPackage for Primeview arrays
BiocViews Annotation Cancer Organism cdf probe affy biocViews BiocViews BiocViews Cancer
updated 11.4 years ago by ★ 3.9k • written 11.4 years ago by ▴ 140
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4
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1.7k
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Passing multiple files to pdInfobuilder
BiocViews biocViews pdInfoBuilder BiocViews BiocViews biocViews pdInfoBuilder
updated 12.1 years ago by ▴ 50 • written 12.1 years ago by ★ 13k
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0
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3.3k
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Bioconductor 2.11 is released
BiocViews SNP Transcription Sequencing miRNA Microbiome Microarray qPCR Genetics Coverage
12.1 years ago Dan Tenenbaum ★ 8.2k
0
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1
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1.5k
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AnnotationDbi: NewSchema vignette error
BiocViews miRNA Annotation Cancer Organism biocViews AnnotationDbi BiocViews BiocViews
updated 12.4 years ago by ★ 7.2k • written 12.4 years ago by ▴ 910
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1.4k
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Nimblegen promoter medip array platform design file problem
BiocViews Annotation Organism biocViews pdInfoBuilder charm BiocViews BiocViews Annotation
12.6 years ago zeynep özkeserli ▴ 160
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1.4k
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Nimblegen promoter medip array platform design file problem
BiocViews Annotation Organism biocViews pdInfoBuilder charm BiocViews BiocViews Annotation
12.6 years ago zeynep özkeserli ▴ 160
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2
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1.5k
views
oligo package: extracting position, sequence, and intensity from Affymetrix tiling array
BiocViews Organism biocViews oligo pdInfoBuilder BiocViews BiocViews Organism biocViews
updated 12.7 years ago by ★ 4.3k • written 12.7 years ago by ★ 13k
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0
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1.1k
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makeOrgPackageFromNCBI another error - reversed commands
BiocViews GO Organism ChipName biocViews BiocViews BiocViews GO Organism ChipName
12.7 years ago Guest User ★ 13k
0
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1
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1.5k
views
makePdInfoPackage Error in sqliteExecStatement(con, statement, bind.data) : , bind.data must have non-zero dimensions
BiocViews Annotation Organism biocViews BiocViews BiocViews Annotation Organism biocViews
updated 12.8 years ago by ★ 4.3k • written 12.8 years ago by ▴ 20
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Using pdInfoBuilder for Human Exon Array
BiocViews Annotation Organism cdf biocViews oligo pdInfoBuilder BiocViews BiocViews cdf
13.4 years ago Maria Rodrigo-Domingo / Region Nordjyll… ▴ 10
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4
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4.6k
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An error in oligo: All the CEL files must be of the same type??
BiocViews Annotation Organism biocViews oligo BiocViews BiocViews Annotation Organism
updated 13.5 years ago by ★ 4.3k • written 13.5 years ago by ▴ 20
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1.5k
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Bioconductor 2.7 is released
BiocViews aCGH Transcription RNASeq miRNA Microarray Normalization Network Bayesian aCGH
14.1 years ago Martin Morgan 25k
0
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1
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1.6k
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error fix.by(by.x, x) in Pdinfobuilder package
BiocViews Microarray Annotation Organism biocViews BiocViews BiocViews Microarray Organism
updated 14.1 years ago by ★ 4.3k • written 14.1 years ago by ▴ 60
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1.3k
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Building AnnotationDbi Packages - Problems when using makeAnnDbPkg
BiocViews Genetics Annotation GO Organism probe biocViews AnnotationDbi BiocViews GO
14.5 years ago Marc Carlson ★ 7.2k
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1.1k
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Building AnnotationDbi Packages - Problems when using makeAnnDbPkg
BiocViews Genetics Annotation GO Organism biocViews AnnotationDbi BiocViews BiocViews GO
14.5 years ago Julian Lee ▴ 10
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1
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1.8k
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Affy Gene ST arrays with "oligo"
BiocViews Annotation Organism affy PROcess biocViews BiocViews BiocViews Annotation affy
updated 15.5 years ago by ★ 3.9k • written 15.5 years ago by ▴ 830
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1
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1.1k
views
error while using oligo to build a custom affy cdf
BiocViews cdf affy biocViews BiocViews BiocViews cdf affy biocViews
updated 16.1 years ago by 67k • written 16.1 years ago by ▴ 830
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3
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1.4k
views
inquiry for CDF file
BiocViews biocViews pdInfoBuilder BiocViews BiocViews biocViews pdInfoBuilder
16.2 years ago Rob Dunne ▴ 230
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0
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1.4k
views
Sc03b_MR_v04 CDF package
BiocViews Genetics Yeast cdf probe affy affxparser biocViews oligo pdInfoBuilder Yeast
16.2 years ago Ludo Muller ▴ 50
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0
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1.3k
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confusion about nomenclature of illumina annotationpackages
BiocViews Annotation Cancer Mus musculus illuminaHumanv1 illuminaHumanv2 probe annotate
16.3 years ago Lynn Amon ▴ 280
0
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1
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1.8k
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confusion about nomenclature of illumina annotation packages
BiocViews annotate biocViews BiocViews BiocViews annotate biocViews
updated 16.4 years ago by ▴ 280 • written 16.4 years ago by ▴ 130
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3
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1.6k
views
pd.mapping 10Karray
BiocViews cdf affyio biocViews oligo pdInfoBuilder BufferedMatrix BiocViews BiocViews cdf
updated 17.3 years ago by ★ 7.4k • written 17.3 years ago by ▴ 10
0
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0
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1.4k
views
BioC 1.9 is released!
BiocViews SNP Microarray Annotation Normalization Visualization Network Infrastructure SNP
18.1 years ago Seth Falcon ★ 7.4k
0
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1
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1.0k
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getting a list of packages by biocView tags
BiocViews biocViews BiocViews BiocViews biocViews
updated 18.5 years ago by ★ 7.4k • written 18.5 years ago by ▴ 50
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1.4k
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Bioconductor 1.8 for R 2.3.0 is released!
BiocViews aCGH SNP Microarray Annotation GO Clustering Cancer Yeast cdf probe RMAGEML
18.6 years ago Seth Falcon ★ 7.4k
38 results • Page 1 of 1
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Comment: ANOVA like approach of edgeR by Yunshun Chen ▴ 870
If you do it this way, the dispersion estimates would be much higher than they should (as the cell type difference is not accounted for in …
Comment: ANOVA like approach of edgeR by SamGG ▴ 350
Simply remove the cell type from the model. design <- model.matrix(~targets$Status)
Answer: ANOVA like approach of edgeR by Yunshun Chen ▴ 870
You could try the followings: > design <- model.matrix(~ 0 + group) > contrast <- makeContrasts(PvsL = 0.5*(L.pregnant + B.pregnan…
Answer: Identical samples after deseq2 batch effect removal by maripane • 0
Thanks Michael, so is there a way to work around this issue? Can I somehow make sure I can remove this batch effects without overcorrecti…
Comment: CleanUpRNAseq with a GTF that is missing mitochondria annotation data by rcreed • 0
The updated version worked well on my data. Thank you!
Votes
A: ANOVA-like test with edgeR
Answer: CleanUpRNAseq with a GTF that is missing mitochondria annotation data
Answer: CleanUpRNAseq with a GTF that is missing mitochondria annotation data
A: TopGO: How to retrieve the gene list related to a GO ID ?
A: Error in DESeqDataSet : some values in assay are not integers
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