Showing : topGO • reset
1
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2
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605
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Access genes associated with GO terms for a topGO object created with gene2GO
topGO
3 months ago Dan • 0
0
votes
2
replies
595
views
enrichPlot error when plotting topGO results
topGO enrichplot
updated 6 months ago by 65k • written 6 months ago by • 0
0
votes
1
reply
555
views
library(topGO) query
topGO scRNAseq
updated 9 months ago by ▴ 780 • written 9 months ago by • 0
1
vote
1
reply
552
views
urgent error for producing table of topGO() annotated DMPs methylation
methylationArrayAnalysis topGO missMethyl MethylationArrayData MethylationArray
updated 12 months ago by ▴ 40 • written 12 months ago by • 0
0
votes
1
reply
766
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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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451
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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
vote
1
reply
1.0k
views
topGo error loading data
topGO GO
16 months ago peter • 0
1
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0
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781
views
adjusted p-values with topGO elim.KS method
topGO Ontology DifferentialExpression
19 months ago Kevin Gregory ▴ 10
0
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4
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2.6k
views
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
vote
3
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1.6k
views
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
views
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
0
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0
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582
views
What exactly are Nontrivial node in topGO analysis?
topGO GO
2.0 years ago theophile • 0
0
votes
6
replies
1.4k
views
extract significant gene list from specific GO namber
topGO
updated 2.1 years ago by 65k • written 2.1 years ago by • 0
4
votes
7
replies
1.9k
views
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
votes
1
reply
1.0k
views
Help me do a gene enrichment analysis
DESeq2 topGO heatmaps
updated 2.7 years ago by ▴ 40 • written 2.7 years ago by • 0
0
votes
1
reply
841
views
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
844
views
topGo GenTable returns result column as character
GenTable topGO
updated 3.1 years ago by 65k • written 3.1 years ago by • 0
0
votes
0
replies
639
views
topGO weight01 method: potential bug in the code
topGO weight01
3.2 years ago Vladimir • 0
1
vote
3
replies
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
votes
0
replies
927
views
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
vote
1
reply
1.7k
views
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
2
votes
1
reply
1.9k
views
topGO expected values showing NA
GO hgu133plus2 topGO GO hgu133plus2 topGO
updated 3.3 years ago by ▴ 20 • written 11.1 years ago by ▴ 340
1
vote
3
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1.3k
views
topGo custom Annotation table
customannotation enrichmentanalysis topGO
updated 3.3 years ago by 65k • written 3.3 years ago by • 0
0
votes
0
replies
753
views
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
votes
7
replies
2.3k
views
topGO: GO term enrichment analysis of differentially expressed genes (!) including fold-change (!)
foldchange topGO DifferentialExpression enrichment
updated 3.5 years ago by 50k • written 3.5 years ago by ▴ 20
0
votes
4
replies
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
vote
6
replies
1.4k
views
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
3
votes
4
replies
1.6k
views
Different geneset same p-values in topGO
topgo bug
7.3 years ago • updated 3.6 years ago Lluís Revilla Sancho ▴ 730
4
votes
4
replies
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
votes
3
replies
1.1k
views
Error in topGO analysis
software error topGO go
updated 3.7 years ago by ★ 3.9k • written 3.7 years ago by • 0
0
votes
3
replies
947
views
Use topGOdata in devtools package
topGO devtools R
updated 3.7 years ago by 65k • written 3.7 years ago by • 0
1
vote
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
votes
8
replies
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
4
votes
8
replies
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
5
votes
7
replies
1.1k
views
Unexpected error with topGO, cannot build topGOdata object
topGO
4.0 years ago abf ▴ 30
0
votes
1
reply
675
views
Missing ALL library in BiocManager using topGO
topGO
updated 4.0 years ago by 65k • written 4.0 years ago by • 0
1
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3
replies
1.5k
views
TopGO significant genes
TopGO GO
4.0 years ago Al-a ▴ 10
0
votes
14
replies
2.2k
views
annFUN error TOPGO
TOPGO annFUN error
updated 4.1 years ago by ★ 3.9k • written 4.1 years ago by • 0
0
votes
1
reply
879
views
Diagnosing topGo issue - single enriched gene per enriched GO term
topGo gene enrichment ontology analysis
4.7 years ago s.bourne • 0
3
votes
3
replies
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
votes
2
replies
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
0
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3
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1.3k
views
usage of topGO after limma
limma topGO microarray
updated 5.1 years ago by 50k • written 5.1 years ago by • 0
0
votes
0
replies
1.1k
views
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
reply
1.1k
views
How to retreive topGO significant IDs of genes after enrichment test ?
topGO significant enrichment genes IDs
5.3 years ago David ROUX ▴ 20
0
votes
1
reply
1.5k
views
topGO: "There are no adj nodes for node"
software error topGO org.hs.eg.db
5.4 years ago natske ▴ 10
2
votes
6
replies
1.9k
views
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
votes
9
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4.7k
views
topGO "invalid argument to unary operator"
software error topgo
updated 5.5 years ago by 65k • written 5.5 years ago by • 0
0
votes
0
replies
1.1k
views
topGO analysis runTest: non-numeric argument to binary operator
topGO
5.5 years ago Dave Th. • 0
0
votes
0
replies
1.2k
views
topGO: how to print GO descriptions only when using showSigOfNodes?
topgo
5.6 years ago anton.kratz ▴ 60
0
votes
4
replies
1.8k
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
50 results • Page 1 of 1
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Answer: Dominance Index for Shotgun Metagenomics Data by Leo Lahti ▴ 40
1. Note that Simpson's dominance index (\lambda) is a different index than inverse Simpson (1/\lambda) or reciprocal Simpson (1-\lambda). T…
Comment: Math expression in shapeCustom legend in EnhancedVolcano by pl23 • 0
Thank you very much - that worked perfectly! Word of warning to those who try this: it screws up the other legends because of the markdown …
Answer: PCA plot suggestions by Michael Love 41k
For help with interpretation and design of analysis, I recommend working with a local statistician. Due to time restrictions, I can only…
Comment: DESeq2 Error in `.rowNamesDF<-`(x, value = value): Invalid 'row.names' length by ussarizona ▴ 10
Hi Michael, Yes, I could figure it out what does the error mean. In my matrix I had the first colum GeneID while in my condition I only h…
Answer: Deseq2. decontXcounts not integers. Useful alternative? by Michael Love 41k
Another option would be to put the per sample estimated contamination in the design. This is for example how RUV etc help remove spurious D…
Votes
Answer: Dominance Index for Shotgun Metagenomics Data
Answer: Math expression in shapeCustom legend in EnhancedVolcano
Comment: DESeq2 Error in `.rowNamesDF<-`(x, value = value): Invalid 'row.names' length
Comment: Deseq2. decontXcounts not integers. Useful alternative?
Comment: Opposite sign of LFC in count plots of DEGs (DESeq2)
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