Showing : topgo • reset
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topGo GenTable returns result column as character
GenTable topGO
updated 5 weeks ago by 56k • written 5 weeks ago by • 0
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65
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topGO weight01 method: potential bug in the code
topGO weight01
8 weeks ago Vladimir • 0
1
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3
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125
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topGO enrichment analysis, ontology selection.
topGO enrichmentanalysis geneontology
updated 9 weeks ago by ▴ 630 • written 10 weeks ago by • 0
1
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0
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51
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Saving the results of the topGO package as an R object (rda/rds file).
RNASeq GO topGO Pathways
10 weeks ago Ben ▴ 20
1
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1
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99
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TopGO : significant GO term, but 0 gene significant in this GO term (with elim-ks method)
topGO
updated 11 weeks ago by 56k • written 11 weeks ago by • 0
0
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1
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863
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topGO expected values showing NA
GO hgu133plus2 topGO GO hgu133plus2 topGO
updated 3 months ago by • 0 • written 8.1 years ago by ▴ 340
1
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3
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130
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topGo custom Annotation table
customannotation enrichmentanalysis topGO
updated 3 months ago by 56k • written 3 months ago by • 0
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77
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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 months ago Madza Farias-Virgens • 0
0
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7
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211
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topGO: GO term enrichment analysis of differentially expressed genes (!) including fold-change (!)
foldchange topGO DifferentialExpression enrichment
updated 5 months ago by 42k • written 5 months ago by • 0
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4
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208
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topGO "argument is of length zero" error
GO.db topGO
updated 5 months ago by 56k • written 5 months ago by • 0
1
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6
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186
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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 6 months ago by 56k • written 6 months ago by • 0
3
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4
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609
views
Different geneset same p-values in topGO
topgo bug
4.2 years ago • updated 6 months ago Lluís Revilla Sancho ▴ 630
4
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4
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198
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Replicating GO website analysis with bioconductor packages (topGO?)
topGO Gene Ontology enrichment panther.db
updated 7 months ago by 42k • written 7 months ago by ▴ 120
2
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3
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125
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Error in topGO analysis
software error topGO go
updated 7 months ago by 2.7k • written 7 months ago by • 0
0
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3
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130
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Use topGOdata in devtools package
topGO devtools R
updated 8 months ago by 56k • written 8 months ago by • 0
1
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1
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139
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Error in GO enrichment with topGO
topGO microarray Gene ontology
updated 8 months ago by 56k • written 9 months ago by ▴ 10
4
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8
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651
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topGO error: allGenes should be a factor or a numeric vector
topGO topgo GO term analysis
updated 9 months ago by 2.7k • written 9 months ago by ▴ 10
2
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5
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168
views
Don't let TopGo to trimm long GO names
go software error topgo rna-seq
10 months ago morteza.aslanzadeh ▴ 20
5
votes
7
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170
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Unexpected error with topGO, cannot build topGOdata object
topGO
11 months ago abf ▴ 30
0
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1
reply
85
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Missing ALL library in BiocManager using topGO
topGO
updated 11 months ago by 56k • written 11 months ago by • 0
1
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3
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110
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TopGO significant genes
TopGO GO
11 months ago Al-a ▴ 10
0
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14
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205
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annFUN error TOPGO
TOPGO annFUN error
updated 12 months ago by 2.7k • written 12 months ago by • 0
0
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1
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223
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Diagnosing topGo issue - single enriched gene per enriched GO term
topGo gene enrichment ontology analysis
20 months ago s.bourne • 0
3
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3
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272
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Discrepancies between topGO output and input
go topGO gene ontology enrichment
updated 21 months ago by 56k • written 21 months ago by • 0
1
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2
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453
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topGO package unable to find library(ALL) and data(ALL)
topGO software error
updated 22 months ago by 56k • written 22 months ago by ▴ 40
0
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3
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373
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usage of topGO after limma
limma topGO microarray
updated 2.0 years ago by 42k • written 2.0 years ago by • 0
0
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0
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273
views
topGO::annFUN.org() problem due to case-sensitivity of OrgDb field names
topGO AnnotationForge
2.1 years ago psutton • 0
1
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1
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319
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How to retreive topGO significant IDs of genes after enrichment test ?
topGO significant enrichment genes IDs
2.2 years ago David ROUX ▴ 10
0
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1
reply
536
views
topGO: "There are no adj nodes for node"
software error topGO org.hs.eg.db
2.3 years ago natske ▴ 10
2
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6
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405
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topGO: GO terms in gene annotation do not match significant GO term output
rnaseq topgo go enrichment
updated 2.4 years ago by 56k • written 2.4 years ago by • 0
3
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9
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1.2k
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topGO "invalid argument to unary operator"
software error topgo
updated 2.4 years ago by 56k • written 2.4 years ago by • 0
0
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0
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517
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topGO analysis runTest: non-numeric argument to binary operator
topGO
2.5 years ago Dave Th. • 0
0
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0
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369
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topGO: how to print GO descriptions only when using showSigOfNodes?
topgo
2.6 years ago anton.kratz ▴ 60
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4
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672
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How do you specify "chip" in printGenes of TopGO for maize data
TopGo printGenes
updated 2.6 years ago by 56k • written 2.6 years ago by • 0
3
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3
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385
views
DEXUSResult as.data.frame doesn't work well if topGO is loaded
dexus topgo
updated 2.7 years ago by 56k • written 2.7 years ago by • 0
0
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0
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248
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TopGOdata Object error
topgo
2.8 years ago s1607338 • 0
1
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1
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331
views
topGO enrichment analysis
topgo
2.8 years ago prakashpandey1111 • 0
2
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4
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379
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topGO: how to rettrieve (long) GO term description without abbreviating
topGO
2.8 years ago al-ash ▴ 20
0
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1
reply
406
views
TopGO ks test using a score different from p-value
topgo ks score kolmogorov-smirnov test go enrichment
updated 2.8 years ago by ▴ 630 • written 2.8 years ago by • 0
1
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0
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650
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topGO (Version: 2.30.1) - weight01 algorithm
topgo gene ontology pathway analysis rnaseq DEG
3.1 years ago digrigor ▴ 10
0
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2
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424
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Using topGO for GO Enrichment on methylation markers (Illumina 450k)
topGO illuminahumanmethylation450k.db
3.1 years ago dusan.petrovic • 0
0
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1
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620
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topGO error : could not find function "annotationFun"
topGO R
3.1 years ago User • 0
1
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3
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1.1k
views
AffyLib query in topGO
topGO affy
updated 3.1 years ago by 56k • written 3.1 years ago by • 0
0
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1
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418
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Unannotated genes in TopGO
TopGO go analysis
3.2 years ago Yvan Wenger ▴ 50
2
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1
reply
641
views
TopGO - Incorrect mapping genes to GO terms
topgo go org.mm.eg.db
updated 3.2 years ago by 56k • written 3.2 years ago by • 0
0
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4
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539
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Error topGO printGenes
topGo
3.2 years ago irving.jgalo23 • 0
0
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1
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1.0k
views
using other ontologies in topGO && building GO.db like database for GO-like ontologies
GO topGO GO topGO
updated 3.3 years ago by ▴ 50 • written 7.1 years ago by ▴ 10
1
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2
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1.9k
views
topGO and font size in the graph plots
topGO topGO
updated 3.3 years ago by ▴ 10 • written 12.5 years ago by ▴ 10
0
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6
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613
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ENSEMBL causing issues replicating previous results
R ENSEMBL topGO
3.3 years ago snguyen268 • 0
0
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1
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624
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topGO - Extra terms appearing in main analysis and the enrichment test
gene ontology topGO GO
3.4 years ago beachboarder900 ▴ 40
40,557 results • Page 1 of 812
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Answer: DepMap copy number by Laurent Gatto 1.5k
Hi Danny - sorry for the delay in answering, I hadn't set `depmap` as a tag yet. Yes, that bug has been fixed in the devel version.
Answer: High fold change reported for comparison of samples with zero values in all samp by James W. MacDonald 56k
The universal recommendation is to remove all genes with consistently low (or all zero) expression values prior to doing any modeling. It i…
Comment: Sample quality weights for RNA-seq by Naomi Altman ★ 6.0k
Thanks Michael. I'll try that. (Limma folks, I'd still love to hear from you.)
Answer: Installation error if message implemented in .Rprofile by Mike Smith ★ 4.9k
A similar issue has been reported recently for rhdf5filters (https://github.com/grimbough/rhdf5filters/issues/11) and rhdf5 (https://github…
Comment: Couldn't load org.Hs.eg.db by Xulei Huo • 0
That does not work, i have tried it.
Votes
Answer: TargetsFile. Where it is?
Answer: TargetsFile. Where it is?
Comment: TargetsFile. Where it is?
Comment: Using DESeq2 to identify changing transcriptional activity in a metagenome
Answer: .onLoad failed in loadNamespace() for 'org.Hs.eg.db'
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