Showing : organism • reset
0
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4
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2.2k
views
FeatureExpressionSet using list.files() in place of read.xysfiles()
Microarray Annotation GO Organism probe annotate limma convert pdInfoBuilder sva GO sva
updated 12.7 years ago by ★ 4.3k • written 12.7 years ago by ▴ 140
2
votes
4
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views
makePdInfoPackage for Primeview arrays
BiocViews Annotation Cancer Organism cdf probe affy biocViews BiocViews BiocViews Cancer
updated 12.7 years ago by ★ 3.9k • written 12.7 years ago by ▴ 140
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easyRNASeq packages: overlapping exons warning unsolved (?) and use of paired end information
Annotation Organism edgeR DESeq easyRNASeq Annotation Organism edgeR DESeq easyRNASeq
12.7 years ago Gabriele Zoppoli ▴ 50
0
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10
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4.0k
views
PAIR files -- feature set table
Microarray Annotation Organism annotate pdInfoBuilder Microarray Annotation Organism
updated 12.7 years ago by ★ 4.3k • written 12.7 years ago by ★ 13k
0
votes
7
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1.5k
views
advantages of annotation packages
Annotation GO Organism Annotation GO Organism
updated 12.8 years ago by 25k • written 12.8 years ago by ▴ 30
0
votes
1
reply
1.3k
views
Add new affy organism platform
Microarray Annotation Organism cdf db0 probe annotate affy Microarray Annotation cdf
updated 12.8 years ago by ★ 7.2k • written 12.8 years ago by ▴ 50
0
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0
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2.4k
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GWASTools
Organism GWASTools Organism GWASTools SNPRelate
13.0 years ago Stephanie M. Gogarten ▴ 890
0
votes
1
reply
1.2k
views
Error in .testGOFrame(x, organism)
GO Organism rat2302 AnnotationDbi GO Organism rat2302 AnnotationDbi
updated 13.0 years ago by ★ 6.8k • written 13.0 years ago by ★ 13k
0
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0
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1.1k
views
easyRNA adapting annotations to avoid overlapping synthetic exons
Annotation Organism easyRNASeq Annotation Organism easyRNASeq
13.0 years ago delhomme@embl.de ★ 1.2k
0
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0
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1.2k
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easyRNA adapting annotations to avoid overlapping synthetic exons
Annotation Organism easyRNASeq Annotation Organism easyRNASeq
13.0 years ago Bayles, Darrell ▴ 10
0
votes
0
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2.1k
views
SPIA algorithm organisms not included already in the SPIA package
Organism SPIA goseq KEGGREST Organism SPIA goseq KEGGREST
13.0 years ago Tarca, Adi ▴ 570
0
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0
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1.8k
views
changes in SPIA package: using updated KEGG pathway data
Organism SPIA Organism SPIA
13.0 years ago Tarca, Adi ▴ 570
0
votes
1
reply
1.9k
views
GWASTools for analyzing Canine_HD genotyping data
Organism cdf GWASTools Organism cdf GWASTools
13.0 years ago Stephanie M. Gogarten ▴ 890
0
votes
1
reply
2.6k
views
Bioconductor Digest, Vol 120, Issue 12
Microarray qPCR Coverage Annotation Pathways Visualization Cancer Breast Organism affy
13.0 years ago Matthew Thornton ▴ 390
0
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1
reply
1.6k
views
(missing?) UCSCKG -> SYMBOL mappings in Homo.sapiens (etc.)
Organism GenomicFeatures Organism GenomicFeatures
updated 13.1 years ago by ★ 7.2k • written 13.1 years ago by ★ 4.2k
0
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1
reply
1.8k
views
Problems in running easyRNASeq
Annotation Organism DEGseq easyRNASeq Annotation Organism DEGseq easyRNASeq
updated 13.1 years ago by ★ 1.2k • written 13.1 years ago by ★ 13k
0
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1
reply
1.5k
views
question about "evidence code" in data.frame from GOstats packages with unsupported model organisms (Marc Carlson)
GO Organism GOstats GO Organism GOstats
updated 13.1 years ago by ★ 7.2k • written 13.1 years ago by ▴ 100
0
votes
0
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1.9k
views
Error message with transcriptCounts(easyRNASeq) performed with gtf file generated with cuffmerge
RNASeq Annotation Normalization Cancer Organism BSgenome BSgenome easyRNASeq RNASeq
13.2 years ago Richard Friedman ★ 2.0k
0
votes
10
replies
3.9k
views
gene set enrichment
Annotation Organism Annotation Organism
updated 4.0 years ago by 53k • written 13.3 years ago by ▴ 220
0
votes
2
replies
1.6k
views
error message with easyRNASeq use case
RNASeq Cancer Organism easyRNASeq RNASeq Cancer Organism easyRNASeq
updated 13.3 years ago by 68k • written 13.3 years ago by ★ 2.0k
0
votes
0
replies
880
views
discrepancy between gene models in easyRNASeq and provided exon annotation
RNASeq Annotation Organism BSgenome BSgenome RNASeq Annotation Organism BSgenome BSgenome
13.3 years ago Guest User ★ 13k
0
votes
4
replies
2.5k
views
KEGGgraph
Pathways Organism graph PROcess KEGGgraph Pathways Organism graph PROcess KEGGgraph
13.3 years ago Ricardo Silva ▴ 110
0
votes
1
reply
1.1k
views
minimal number of features tested in edgeR
Organism edgeR Organism edgeR
updated 13.4 years ago by ▴ 880 • written 13.4 years ago by ★ 13k
0
votes
1
reply
936
views
annotation package building
Annotation Organism PROcess Annotation Organism PROcess
updated 13.4 years ago by ★ 7.2k • written 13.4 years ago by ▴ 60
0
votes
4
replies
1.6k
views
Creating annotation package with a new database schema
Annotation GO Organism Annotation GO Organism
updated 13.4 years ago by 16k • written 13.4 years ago by ▴ 30
0
votes
0
replies
1.3k
views
GOSim Problem
Yeast Organism GOSim Yeast Organism GOSim
13.4 years ago Pablo Andretta Jaskowiak ▴ 10
0
votes
1
reply
1.2k
views
warnings on easyRNASeq package
Annotation Organism PROcess GenomicRanges easyRNASeq Annotation Organism PROcess
updated 13.4 years ago by ▴ 10 • written 13.4 years ago by ★ 1.2k
0
votes
2
replies
2.0k
views
VariantAnnotation: readVcf on nonmodel organism
Organism genomes Organism genomes
updated 13.4 years ago by ★ 6.8k • written 13.4 years ago by ▴ 40
0
votes
0
replies
928
views
IRanges: Error in mk_singleBracketReplacementValue(x, value)
Organism Organism
13.4 years ago delhomme@embl.de ★ 1.2k
0
votes
1
reply
2.3k
views
Bioconductor Digest, Vol 115, Issue 22
Transcription Sequencing miRNA SmallRNA Annotation Normalization GO Cancer Organism edgeR
updated 13.4 years ago by ★ 13k • written 13.4 years ago by ▴ 10
0
votes
2
replies
1.5k
views
easyRNASeq package: error when summarizing per gene
RNASeq Annotation Organism BSgenome BSgenome easyRNASeq RNASeq Annotation Organism
updated 13.5 years ago by ★ 1.2k • written 13.5 years ago by ★ 13k
0
votes
3
replies
2.2k
views
BLAST - annotate package?
Organism Organism
updated 13.5 years ago by 68k • written 13.5 years ago by ★ 1.1k
0
votes
1
reply
1.1k
views
Regarding an issue with easyRNASeq - from Surjyendu Ray.
Organism edgeR easyRNASeq Organism edgeR easyRNASeq
13.5 years ago delhomme@embl.de ★ 1.2k
0
votes
2
replies
1.4k
views
KEGGSOAP: list.pathways(org) or alternative way
Pathways Organism KEGGSOAP Pathways Organism KEGGSOAP
updated 13.5 years ago by ★ 7.2k • written 13.5 years ago by ▴ 30
0
votes
0
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1.1k
views
reads of different lengths (easyRNASeq)
Annotation Organism BSgenome convert BSgenome easyRNASeq Annotation Organism BSgenome
13.7 years ago delhomme@embl.de ★ 1.2k
0
votes
1
reply
1.7k
views
AnnotationDbi: NewSchema vignette error
BiocViews miRNA Annotation Cancer Organism biocViews AnnotationDbi BiocViews BiocViews
updated 13.7 years ago by ★ 7.2k • written 13.7 years ago by ▴ 910
0
votes
0
replies
1.2k
views
gene2pathway retrain() error: species \'hsa\' unknown
Organism hgu95av2 gene2pathway Organism hgu95av2 gene2pathway
13.7 years ago Guest User ★ 13k
0
votes
1
reply
2.1k
views
Compressed boxplots after 'normexp+offset' background correction of Agilent one color microarrays in LIMMA
Normalization Organism limma Normalization Organism limma
updated 13.7 years ago by ★ 2.0k • written 13.7 years ago by ▴ 10
0
votes
1
reply
1.1k
views
Expt. design question on optimal number of replicates (in edgeR or elsewhere)
RNASeq Organism edgeR RNASeq Organism edgeR
updated 13.8 years ago by ▴ 210 • written 13.8 years ago by 53k
0
votes
0
replies
810
views
Expt. design question on optimal number of replicates (in edgeR or else where)
RNASeq Organism edgeR RNASeq Organism edgeR
13.8 years ago gowtham ▴ 210
0
votes
2
replies
1.5k
views
easyRNASeq Error in counting from C.elegans
Alignment Annotation Organism Alignment Annotation Organism
updated 13.8 years ago by ★ 1.2k • written 13.8 years ago by ▴ 40
0
votes
0
replies
1.6k
views
Nimblegen promoter medip array platform design file problem
BiocViews Annotation Organism biocViews pdInfoBuilder charm BiocViews BiocViews Annotation
13.9 years ago zeynep özkeserli ▴ 160
0
votes
0
replies
1.7k
views
Nimblegen promoter medip array platform design file problem
BiocViews Annotation Organism biocViews pdInfoBuilder charm BiocViews BiocViews Annotation
13.9 years ago zeynep özkeserli ▴ 160
0
votes
0
replies
1.7k
views
[Hinxton #251937] RE: GenomicFeatures::makeTranscriptDbFromBiomart - BioMart data anomaly: for some transcripts, the cds cumulative length inferred f…
Cancer Organism biomaRt genomes Cancer Organism biomaRt genomes
13.9 years ago Malcolm Cook ★ 1.6k
0
votes
2
replies
1.8k
views
oligo package: extracting position, sequence, and intensity from Affymetrix tiling array
BiocViews Organism biocViews oligo pdInfoBuilder BiocViews BiocViews Organism biocViews
updated 13.9 years ago by ★ 4.3k • written 13.9 years ago by ★ 13k
0
votes
6
replies
2.1k
views
[Hinxton #251937] RE: GenomicFeatures::makeTranscriptDbFromBiomart - BioMart data anomaly: for some transcripts, the cds cumulative length inferred f…
Cancer Organism biomaRt GenomicFeatures genomes Cancer Organism biomaRt GenomicFeatures
updated 14.0 years ago by ▴ 660 • written 14.0 years ago by 16k
0
votes
1
reply
1.4k
views
How to combine different annotation (chromosomic, genic) when using easyRNASeq (was easyRNASeq error)
RNASeq Annotation Organism biomaRt easyRNASeq RNASeq Annotation Organism biomaRt
updated 14.0 years ago by ▴ 350 • written 14.0 years ago by ★ 1.2k
0
votes
0
replies
1.2k
views
makeOrgPackageFromNCBI another error - reversed commands
BiocViews GO Organism ChipName biocViews BiocViews BiocViews GO Organism ChipName
14.0 years ago Guest User ★ 13k
0
votes
4
replies
2.2k
views
easyRNASeq error
Sequencing Alignment Annotation Organism BSgenome biomaRt BSgenome easyRNASeq Sequencing
14.0 years ago delhomme@embl.de ★ 1.2k
0
votes
1
reply
2.2k
views
problem creating own org.Ss.eg.db
Annotation GO Organism OrgDb Annotation GO Organism OrgDb
updated 14.0 years ago by ★ 4.1k • written 14.0 years ago by ★ 7.2k
219 results • Page 2 of 5
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Answer: Inconsistencies between accessor functions for TxDb databases with selected seql by a2a2hd42aa • 0
Technical inconsistencies in database accessors can disrupt your workflow, but finding a reliable source to download online mobile games sh…
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Thanks both for this useful information.
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SNPlocs.Hsapiens.dbSNP155.GRCh38 is available for download from the same location as always. It has not changed since Bioc 3.20: Presumabl…
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Hi, thank you all for the advice. Using James's advice, I managed to install SNPlocs.Hsapiens.dbSNP155.GRCh38, but it took almost half an …
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Do I map probes to gene symbols BEFORE or AFTER differentially expressed gene analysis?
Answer: Can sample-level weights be used when analysing GSVA scores in limma?
Answer: Can sample-level weights be used when analysing GSVA scores in limma?
Comment: Can sample-level weights be used when analysing GSVA scores in limma?
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