Showing : TopGO • reset
0
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5
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589
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Error when running topGO with KS statistic and elim agorithm
topGO
6 months ago • updated 5 months ago A. denDekker • 0
1
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2
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835
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Access genes associated with GO terms for a topGO object created with gene2GO
topGO
10 months ago Dan • 0
0
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2
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954
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enrichPlot error when plotting topGO results
topGO enrichplot
updated 13 months ago by 67k • written 13 months ago by • 0
0
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1
reply
728
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library(topGO) query
topGO scRNAseq
updated 16 months ago by ▴ 780 • written 16 months ago by • 0
1
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1
reply
764
views
urgent error for producing table of topGO() annotated DMPs methylation
methylationArrayAnalysis topGO missMethyl MethylationArrayData MethylationArray
updated 19 months ago by ▴ 40 • written 19 months ago by • 0
0
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1
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1.2k
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In .local(object, test.stat, ...) : No enrichment can pe performed - there are no feasible GO terms!
topGO
updated 19 months ago by 67k • written 19 months ago by • 0
0
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0
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615
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topGO: how do I retrieve my genes contributing to the GO term enrichment
gene enrichment topGO GO retrieve
19 months ago Priya • 0
1
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1
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1.5k
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topGo error loading data
topGO GO
23 months ago peter • 0
1
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0
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1.0k
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adjusted p-values with topGO elim.KS method
topGO Ontology DifferentialExpression
2.2 years ago Kevin Gregory ▴ 10
0
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4
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3.5k
views
How to get significant genes annotated to go term using TopGO?
topGO
updated 2.4 years ago by ▴ 760 • written 2.4 years ago by ▴ 30
1
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3
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2.4k
views
Trouble importing my own Gene Ontology Annotation into topGO
Annotation GeneOntology topGO GO
updated 2.4 years ago by 67k • written 2.4 years ago by ▴ 60
0
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5
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2.6k
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GO enrichment with non-model organism, supplying GO mappings
clusterProfiler goseq topGO DESeq2
updated 2.5 years ago by 67k • written 2.5 years ago by ▴ 30
0
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0
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736
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What exactly are Nontrivial node in topGO analysis?
topGO GO
2.6 years ago theophile • 0
0
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6
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1.7k
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extract significant gene list from specific GO namber
topGO
updated 2.7 years ago by 67k • written 2.7 years ago by • 0
4
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7
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2.4k
views
Updating org.Sc.sgd.db, and integration with topGO
GeneTonic org.Sc.sgd.db pcaExplorer topGO EnrichmentBrowser
updated 2.8 years ago by ▴ 180 • written 2.8 years ago by • 0
0
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1
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1.4k
views
Help me do a gene enrichment analysis
DESeq2 topGO heatmaps
updated 3.2 years ago by ▴ 40 • written 3.2 years ago by • 0
0
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1
reply
1.0k
views
Gene ontology of differentially expressed genes in R
topGO limma DEP
updated 3.3 years ago by 67k • written 3.3 years ago by • 0
0
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1
reply
1.0k
views
topGo GenTable returns result column as character
GenTable topGO
updated 3.7 years ago by 67k • written 3.7 years ago by • 0
0
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0
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747
views
topGO weight01 method: potential bug in the code
topGO weight01
3.8 years ago Vladimir • 0
1
vote
3
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1.7k
views
topGO enrichment analysis, ontology selection.
topGO enrichmentanalysis geneontology
updated 3.8 years ago by ▴ 760 • written 3.8 years ago by • 0
2
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0
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1.1k
views
Saving the results of the topGO package as an R object (rda/rds file).
RNASeq GO topGO Pathways
3.8 years ago Ben ▴ 50
1
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1
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2.1k
views
TopGO : significant GO term, but 0 gene significant in this GO term (with elim-ks method)
topGO
updated 3.8 years ago by 67k • written 3.8 years ago by • 0
2
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1
reply
2.2k
views
topGO expected values showing NA
GO hgu133plus2 topGO GO hgu133plus2 topGO
updated 3.9 years ago by ▴ 20 • written 11.7 years ago by ▴ 340
1
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3
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1.6k
views
topGo custom Annotation table
customannotation enrichmentanalysis topGO
updated 3.9 years ago by 67k • written 3.9 years ago by • 0
0
votes
0
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898
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Functional enrichment analysis for genomic data from non-model organism annotated based on model organism
DOSE hypeR goTools GOstats topGO
4.0 years ago Madza Farias-Virgens • 0
0
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7
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3.0k
views
topGO: GO term enrichment analysis of differentially expressed genes (!) including fold-change (!)
foldchange topGO DifferentialExpression enrichment
updated 4.0 years ago by 51k • written 4.0 years ago by ▴ 20
0
votes
4
replies
1.3k
views
topGO "argument is of length zero" error
GO.db topGO
updated 4.1 years ago by 67k • written 4.1 years ago by • 0
1
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6
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1.8k
views
How to create geneselectionfunction in TopGO: Error in .local(.Object, ...) : allGenes should be a factor or a numeric vector
R TopGO Geneenrichment
updated 4.2 years ago by 67k • written 4.2 years ago by • 0
3
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4
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2.0k
views
Different geneset same p-values in topGO
topgo bug
7.8 years ago • updated 4.2 years ago Lluís Revilla Sancho ▴ 760
4
votes
4
replies
1.6k
views
Replicating GO website analysis with bioconductor packages (topGO?)
topGO Gene Ontology enrichment panther.db
updated 4.2 years ago by 51k • written 4.2 years ago by ▴ 120
2
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3
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1.3k
views
Error in topGO analysis
software error topGO go
updated 4.2 years ago by ★ 4.0k • written 4.2 years ago by • 0
0
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3
replies
1.1k
views
Use topGOdata in devtools package
topGO devtools R
updated 4.3 years ago by 67k • written 4.3 years ago by • 0
1
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1
reply
1.3k
views
Error in GO enrichment with topGO
topGO microarray Gene ontology
updated 4.3 years ago by 67k • written 4.3 years ago by ▴ 10
4
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8
replies
6.6k
views
topGO error: allGenes should be a factor or a numeric vector
topGO topgo GO term analysis
updated 4.3 years ago by ★ 4.0k • written 4.3 years ago by ▴ 10
4
votes
8
replies
2.7k
views
Don't let TopGo to trimm long GO names
go software error topgo rna-seq
updated 21 months ago by 67k • written 4.5 years ago by ▴ 30
5
votes
7
replies
1.3k
views
Unexpected error with topGO, cannot build topGOdata object
topGO
4.6 years ago • updated 4.5 years ago abf ▴ 30
0
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1
reply
817
views
Missing ALL library in BiocManager using topGO
topGO
updated 4.5 years ago by 67k • written 4.5 years ago by • 0
1
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3
replies
1.8k
views
TopGO significant genes
TopGO GO
4.6 years ago Al-a ▴ 10
0
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14
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2.7k
views
annFUN error TOPGO
TOPGO annFUN error
updated 4.6 years ago by ★ 4.0k • written 4.6 years ago by • 0
0
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1
reply
1.0k
views
Diagnosing topGo issue - single enriched gene per enriched GO term
topGo gene enrichment ontology analysis
5.3 years ago s.bourne • 0
3
votes
3
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1.5k
views
Discrepancies between topGO output and input
go topGO gene ontology enrichment
updated 5.4 years ago by 67k • written 5.4 years ago by • 0
2
votes
2
replies
2.5k
views
topGO package unable to find library(ALL) and data(ALL)
topGO software error
updated 5.5 years ago by 67k • written 5.5 years ago by ▴ 60
0
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3
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1.5k
views
usage of topGO after limma
limma topGO microarray
updated 5.7 years ago by 51k • written 5.7 years ago by • 0
0
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0
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1.2k
views
topGO::annFUN.org() problem due to case-sensitivity of OrgDb field names
topGO AnnotationForge
5.7 years ago psutton • 0
1
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1
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1.3k
views
How to retreive topGO significant IDs of genes after enrichment test ?
topGO significant enrichment genes IDs
5.8 years ago David ROUX ▴ 20
0
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1
reply
1.8k
views
topGO: "There are no adj nodes for node"
software error topGO org.hs.eg.db
5.9 years ago natske ▴ 10
2
votes
6
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2.2k
views
topGO: GO terms in gene annotation do not match significant GO term output
rnaseq topgo go enrichment
updated 6.0 years ago by 67k • written 6.0 years ago by • 0
3
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9
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5.3k
views
topGO "invalid argument to unary operator"
software error topgo
updated 6.0 years ago by 67k • written 6.0 years ago by • 0
0
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0
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1.3k
views
topGO analysis runTest: non-numeric argument to binary operator
topGO
6.1 years ago Dave Th. • 0
0
votes
0
replies
1.4k
views
topGO: how to print GO descriptions only when using showSigOfNodes?
topgo
6.2 years ago anton.kratz ▴ 60
50 results • Page 1 of 1
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Comment: CleanUpRNAseq with a GTF that is missing mitochondria annotation data by rcreed • 0
The updated version worked well on my data. Thank you!
Answer: DE analysis on Single cell RNA Seq time course data (using pseudotime) with 5 di by James W. MacDonald 67k
The two contrasts at the bottom are identical but for the sign of the logFC, so you should expect the same results (except for flipped sign…
Comment: Identical samples after deseq2 batch effect removal by Michael Love 42k
Oh, i didn't realize there is another method in the mix here. I would not necessarily trust this "batch correction" method, and suspect o…
Comment: Identifying potentially associated gene set to drug response using GSVA by Kent • 0
Hi @robertc thanks for the reply. I should have explained to you the context first. I am testing over a hundred drugs on patient samples (s…
Answer: BiocNeighbours Utility for k-Nearest Neighbour Classification by James W. MacDonald 67k
You can easily answer this question yourself. ``` > library(BiocPkgTools) Loading required package: htmlwidgets > depdf <- buildPkgDe…
Votes
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
A: correcting the batch effects in Limma and SVA
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