Showing : TOPGO • reset
1
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599
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Access genes associated with GO terms for a topGO object created with gene2GO
topGO
3 months ago Dan • 0
0
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2
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584
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enrichPlot error when plotting topGO results
topGO enrichplot
updated 6 months ago by 65k • written 6 months ago by • 0
0
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1
reply
548
views
library(topGO) query
topGO scRNAseq
updated 9 months ago by ▴ 780 • written 9 months ago by • 0
1
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1
reply
549
views
urgent error for producing table of topGO() annotated DMPs methylation
methylationArrayAnalysis topGO missMethyl MethylationArrayData MethylationArray
updated 11 months ago by ▴ 40 • written 11 months ago by • 0
0
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1
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757
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In .local(object, test.stat, ...) : No enrichment can pe performed - there are no feasible GO terms!
topGO
updated 12 months ago by 65k • written 12 months ago by • 0
0
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0
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448
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topGO: how do I retrieve my genes contributing to the GO term enrichment
gene enrichment topGO GO retrieve
12 months ago Priya • 0
1
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1
reply
1.0k
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topGo error loading data
topGO GO
16 months ago peter • 0
1
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0
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778
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adjusted p-values with topGO elim.KS method
topGO Ontology DifferentialExpression
19 months ago Kevin Gregory ▴ 10
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4
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2.6k
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How to get significant genes annotated to go term using TopGO?
topGO
updated 21 months ago by ▴ 730 • written 21 months ago by ▴ 10
1
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3
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1.6k
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Trouble importing my own Gene Ontology Annotation into topGO
Annotation GeneOntology topGO GO
updated 22 months ago by 65k • written 22 months ago by ▴ 60
0
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5
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2.0k
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GO enrichment with non-model organism, supplying GO mappings
clusterProfiler goseq topGO DESeq2
updated 23 months ago by 65k • written 23 months ago by ▴ 10
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0
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579
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What exactly are Nontrivial node in topGO analysis?
topGO GO
2.0 years ago theophile • 0
0
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6
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1.4k
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extract significant gene list from specific GO namber
topGO
updated 2.1 years ago by 65k • written 2.1 years ago by • 0
4
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7
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1.9k
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Updating org.Sc.sgd.db, and integration with topGO
GeneTonic org.Sc.sgd.db pcaExplorer topGO EnrichmentBrowser
updated 2.2 years ago by ▴ 150 • written 2.2 years ago by • 0
0
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1
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1.0k
views
Help me do a gene enrichment analysis
DESeq2 topGO heatmaps
updated 2.6 years ago by ▴ 40 • written 2.6 years ago by • 0
0
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1
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836
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Gene ontology of differentially expressed genes in R
topGO limma DEP
updated 2.7 years ago by 65k • written 2.7 years ago by • 0
0
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1
reply
838
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topGo GenTable returns result column as character
GenTable topGO
updated 3.1 years ago by 65k • written 3.1 years ago by • 0
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0
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637
views
topGO weight01 method: potential bug in the code
topGO weight01
3.2 years ago Vladimir • 0
1
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3
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1.3k
views
topGO enrichment analysis, ontology selection.
topGO enrichmentanalysis geneontology
updated 3.2 years ago by ▴ 730 • written 3.2 years ago by • 0
2
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0
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921
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Saving the results of the topGO package as an R object (rda/rds file).
RNASeq GO topGO Pathways
3.2 years ago Ben ▴ 50
1
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1
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1.7k
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TopGO : significant GO term, but 0 gene significant in this GO term (with elim-ks method)
topGO
updated 3.2 years ago by 65k • written 3.2 years ago by • 0
1
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3
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1.3k
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topGo custom Annotation table
customannotation enrichmentanalysis topGO
updated 3.3 years ago by 65k • written 3.3 years ago by • 0
0
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0
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750
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Functional enrichment analysis for genomic data from non-model organism annotated based on model organism
DOSE hypeR goTools GOstats topGO
3.4 years ago Madza Farias-Virgens • 0
0
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7
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2.3k
views
topGO: GO term enrichment analysis of differentially expressed genes (!) including fold-change (!)
foldchange topGO DifferentialExpression enrichment
updated 3.4 years ago by 50k • written 3.4 years ago by ▴ 20
0
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4
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1.1k
views
topGO "argument is of length zero" error
GO.db topGO
updated 3.5 years ago by 65k • written 3.5 years ago by • 0
1
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6
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1.4k
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How to create geneselectionfunction in TopGO: Error in .local(.Object, ...) : allGenes should be a factor or a numeric vector
R TopGO Geneenrichment
updated 3.6 years ago by 65k • written 3.6 years ago by • 0
4
votes
4
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1.3k
views
Replicating GO website analysis with bioconductor packages (topGO?)
topGO Gene Ontology enrichment panther.db
updated 3.6 years ago by 50k • written 3.6 years ago by ▴ 120
2
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3
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1.1k
views
Error in topGO analysis
software error topGO go
updated 3.6 years ago by ★ 3.9k • written 3.6 years ago by • 0
0
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3
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944
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Use topGOdata in devtools package
topGO devtools R
updated 3.7 years ago by 65k • written 3.7 years ago by • 0
4
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8
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5.8k
views
topGO error: allGenes should be a factor or a numeric vector
topGO topgo GO term analysis
updated 3.8 years ago by ★ 3.9k • written 3.8 years ago by ▴ 10
1
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1
reply
1.1k
views
Error in GO enrichment with topGO
topGO microarray Gene ontology
updated 3.8 years ago by 65k • written 3.8 years ago by ▴ 10
4
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8
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2.1k
views
Don't let TopGo to trimm long GO names
go software error topgo rna-seq
updated 14 months ago by 65k • written 3.9 years ago by ▴ 30
0
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1
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669
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Missing ALL library in BiocManager using topGO
topGO
updated 4.0 years ago by 65k • written 4.0 years ago by • 0
5
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7
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1.1k
views
Unexpected error with topGO, cannot build topGOdata object
topGO
4.0 years ago abf ▴ 30
1
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3
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1.5k
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TopGO significant genes
TopGO GO
4.0 years ago Al-a ▴ 10
0
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14
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2.2k
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annFUN error TOPGO
TOPGO annFUN error
updated 4.1 years ago by ★ 3.9k • written 4.1 years ago by • 0
0
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1
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874
views
Diagnosing topGo issue - single enriched gene per enriched GO term
topGo gene enrichment ontology analysis
4.7 years ago s.bourne • 0
3
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3
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1.2k
views
Discrepancies between topGO output and input
go topGO gene ontology enrichment
updated 4.8 years ago by 65k • written 4.8 years ago by • 0
2
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2
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2.1k
views
topGO package unable to find library(ALL) and data(ALL)
topGO software error
updated 4.9 years ago by 65k • written 4.9 years ago by ▴ 60
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3
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1.3k
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usage of topGO after limma
limma topGO microarray
updated 5.1 years ago by 50k • written 5.1 years ago by • 0
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0
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1.1k
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topGO::annFUN.org() problem due to case-sensitivity of OrgDb field names
topGO AnnotationForge
5.1 years ago psutton • 0
1
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1
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1.1k
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How to retreive topGO significant IDs of genes after enrichment test ?
topGO significant enrichment genes IDs
5.2 years ago David ROUX ▴ 20
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1
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1.5k
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topGO: "There are no adj nodes for node"
software error topGO org.hs.eg.db
5.4 years ago natske ▴ 10
2
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6
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1.9k
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topGO: GO terms in gene annotation do not match significant GO term output
rnaseq topgo go enrichment
updated 5.4 years ago by 65k • written 5.4 years ago by • 0
3
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9
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4.7k
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topGO "invalid argument to unary operator"
software error topgo
updated 5.4 years ago by 65k • written 5.4 years ago by • 0
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0
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1.1k
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topGO analysis runTest: non-numeric argument to binary operator
topGO
5.5 years ago Dave Th. • 0
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0
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1.2k
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topGO: how to print GO descriptions only when using showSigOfNodes?
topgo
5.6 years ago anton.kratz ▴ 60
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4
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1.7k
views
How do you specify "chip" in printGenes of TopGO for maize data
TopGo printGenes
updated 5.7 years ago by 65k • written 5.7 years ago by • 0
3
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3
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1.0k
views
DEXUSResult as.data.frame doesn't work well if topGO is loaded
dexus topgo
updated 5.7 years ago by 65k • written 5.7 years ago by • 0
0
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0
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709
views
TopGOdata Object error
topgo
5.8 years ago s1607338 • 0
50 results • Page 1 of 1
Recent ...
Replies
Comment: get BM error by James W. MacDonald 65k
I believe you need NCBI Gene IDs for KEGG, in which case you may need to map. The three genes you have shown here don't map, and of those t…
Comment: get BM error by Fara • 0
Thank you for your response. The primary reason for translating Ensembl IDs into Entrez Gene IDs is to perform KEGG (Kyoto Encyclopedia of…
Comment: Error for AnnotationForge makeOrgPackageFromNCBI function by James W. MacDonald 65k
That's weird. I don't have any problem at all generating the `OrgDb` on my box. How big is the gene2pubmed.gz file? I get this: ``` gzip -…
Answer: get BM error by James W. MacDonald 65k
The genes you present are orthologous mappings from D. rerio to other teleost fishes, so it is probably going to be difficult to map to NCB…
Answer: How to retrieve gene ontology GO class from gene list? by James W. MacDonald 65k
You can also use a combination of the `org.Hs.eg.db` and `GO.db` packages. ``` > library(GO.db) > library(org.Hs.eg.db) > go <- m…
Votes
Answer: get BM error
Answer: Use of negative binomial model for exponential decay rate estimation using DESeq
Comment: Different Shrunk Log2FC according with reference
Reproducibility issue with scran together with lapply and BiocParallel
C: SGSeq: moving toward diffex from SGSeq analysis
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