Showing : TOPGO • reset
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TopGO question
topGO top
updated 3 months ago by 68k • written 3 months ago by • 0
0
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5
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1.0k
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Error when running topGO with KS statistic and elim agorithm
topGO
17 months ago • updated 16 months ago A. denDekker • 0
1
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2
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1.1k
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Access genes associated with GO terms for a topGO object created with gene2GO
topGO
21 months ago Dan • 0
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2
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1.4k
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enrichPlot error when plotting topGO results
topGO enrichplot
updated 2.0 years ago by 68k • written 2.0 years ago by • 0
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1
reply
950
views
library(topGO) query
topGO scRNAseq
updated 2.2 years ago by ▴ 780 • written 2.2 years ago by • 0
1
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1
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1.0k
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urgent error for producing table of topGO() annotated DMPs methylation
methylationArrayAnalysis topGO missMethyl MethylationArrayData MethylationArray
updated 2.5 years ago by ▴ 40 • written 2.5 years ago by • 0
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1
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1.6k
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In .local(object, test.stat, ...) : No enrichment can pe performed - there are no feasible GO terms!
topGO
updated 2.5 years ago by 68k • written 2.5 years ago by • 0
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833
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topGO: how do I retrieve my genes contributing to the GO term enrichment
gene enrichment topGO GO retrieve
2.5 years ago Priya • 0
1
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1
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2.0k
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topGo error loading data
topGO GO
2.8 years ago peter • 0
1
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0
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1.4k
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adjusted p-values with topGO elim.KS method
topGO Ontology DifferentialExpression
3.1 years ago Kevin Gregory ▴ 10
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4
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4.5k
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How to get significant genes annotated to go term using TopGO?
topGO
updated 3.3 years ago by ▴ 760 • written 3.3 years ago by ▴ 30
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3
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3.2k
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Trouble importing my own Gene Ontology Annotation into topGO
Annotation GeneOntology topGO GO
updated 3.3 years ago by 68k • written 3.3 years ago by ▴ 60
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5
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3.5k
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GO enrichment with non-model organism, supplying GO mappings
clusterProfiler goseq topGO DESeq2
updated 3.4 years ago by 68k • written 3.4 years ago by ▴ 30
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0
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933
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What exactly are Nontrivial node in topGO analysis?
topGO GO
3.5 years ago theophile • 0
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6
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2.1k
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extract significant gene list from specific GO namber
topGO
updated 3.6 years ago by 68k • written 3.6 years ago by • 0
4
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7
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3.2k
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Updating org.Sc.sgd.db, and integration with topGO
GeneTonic org.Sc.sgd.db pcaExplorer topGO EnrichmentBrowser
updated 3.7 years ago by ▴ 180 • written 3.7 years ago by • 0
0
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1
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1.6k
views
Help me do a gene enrichment analysis
DESeq2 topGO heatmaps
updated 4.1 years ago by ▴ 40 • written 4.1 years ago by • 0
0
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1
reply
1.3k
views
Gene ontology of differentially expressed genes in R
topGO limma DEP
updated 4.2 years ago by 68k • written 4.2 years ago by • 0
0
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1
reply
1.2k
views
topGo GenTable returns result column as character
GenTable topGO
updated 4.6 years ago by 68k • written 4.6 years ago by • 0
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0
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920
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topGO weight01 method: potential bug in the code
topGO weight01
4.7 years ago Vladimir • 0
1
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3
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2.0k
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topGO enrichment analysis, ontology selection.
topGO enrichmentanalysis geneontology
updated 4.7 years ago by ▴ 760 • written 4.7 years ago by • 0
2
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0
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1.4k
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Saving the results of the topGO package as an R object (rda/rds file).
RNASeq GO topGO Pathways
4.7 years ago Ben ▴ 50
1
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1
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2.6k
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TopGO : significant GO term, but 0 gene significant in this GO term (with elim-ks method)
topGO
updated 4.7 years ago by 68k • written 4.7 years ago by • 0
2
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1
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2.5k
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topGO expected values showing NA
GO hgu133plus2 topGO GO hgu133plus2 topGO
updated 4.8 years ago by ▴ 20 • written 12.6 years ago by ▴ 340
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3
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1.9k
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topGo custom Annotation table
customannotation enrichmentanalysis topGO
updated 4.8 years ago by 68k • written 4.8 years ago by • 0
0
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0
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1.1k
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Functional enrichment analysis for genomic data from non-model organism annotated based on model organism
DOSE hypeR goTools GOstats topGO
4.9 years ago Madza Farias-Virgens • 0
0
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7
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4.6k
views
topGO: GO term enrichment analysis of differentially expressed genes (!) including fold-change (!)
foldchange topGO DifferentialExpression enrichment
updated 4.9 years ago by 53k • written 4.9 years ago by ▴ 20
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4
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1.7k
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topGO "argument is of length zero" error
GO.db topGO
updated 5.0 years ago by 68k • written 5.0 years ago by • 0
1
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6
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2.2k
views
How to create geneselectionfunction in TopGO: Error in .local(.Object, ...) : allGenes should be a factor or a numeric vector
R TopGO Geneenrichment
updated 5.1 years ago by 68k • written 5.1 years ago by • 0
3
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4
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2.3k
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Different geneset same p-values in topGO
topgo bug
8.8 years ago • updated 5.1 years ago Lluís Revilla Sancho ▴ 760
4
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4
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2.0k
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Replicating GO website analysis with bioconductor packages (topGO?)
topGO Gene Ontology enrichment panther.db
updated 5.1 years ago by 53k • written 5.1 years ago by ▴ 120
2
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3
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1.6k
views
Error in topGO analysis
software error topGO go
updated 5.1 years ago by ★ 4.0k • written 5.1 years ago by • 0
0
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3
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1.4k
views
Use topGOdata in devtools package
topGO devtools R
updated 5.2 years ago by 68k • written 5.2 years ago by • 0
1
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1
reply
1.6k
views
Error in GO enrichment with topGO
topGO microarray Gene ontology
updated 5.3 years ago by 68k • written 5.3 years ago by ▴ 10
4
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8
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7.6k
views
topGO error: allGenes should be a factor or a numeric vector
topGO topgo GO term analysis
updated 5.3 years ago by ★ 4.0k • written 5.3 years ago by ▴ 10
4
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8
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3.3k
views
Don't let TopGo to trimm long GO names
go software error topgo rna-seq
updated 2.7 years ago by 68k • written 5.4 years ago by ▴ 30
5
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7
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1.7k
views
Unexpected error with topGO, cannot build topGOdata object
topGO
5.5 years ago abf ▴ 30
0
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1
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1.1k
views
Missing ALL library in BiocManager using topGO
topGO
updated 5.5 years ago by 68k • written 5.5 years ago by • 0
1
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3
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2.2k
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TopGO significant genes
TopGO GO
5.5 years ago Al-a ▴ 10
0
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14
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3.5k
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annFUN error TOPGO
TOPGO annFUN error
updated 5.5 years ago by ★ 4.0k • written 5.5 years ago by • 0
0
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1
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1.3k
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Diagnosing topGo issue - single enriched gene per enriched GO term
topGo gene enrichment ontology analysis
6.2 years ago s.bourne • 0
3
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3
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1.8k
views
Discrepancies between topGO output and input
go topGO gene ontology enrichment
updated 6.3 years ago by 68k • written 6.3 years ago by • 0
2
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2
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2.8k
views
topGO package unable to find library(ALL) and data(ALL)
topGO software error
updated 6.4 years ago by 68k • written 6.4 years ago by ▴ 60
0
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3
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1.7k
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usage of topGO after limma
limma topGO microarray
updated 6.6 years ago by 53k • written 6.6 years ago by • 0
0
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0
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1.5k
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topGO::annFUN.org() problem due to case-sensitivity of OrgDb field names
topGO AnnotationForge
6.6 years ago psutton • 0
1
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1
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1.5k
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How to retreive topGO significant IDs of genes after enrichment test ?
topGO significant enrichment genes IDs
6.7 years ago David ROUX ▴ 20
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1
reply
2.0k
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topGO: "There are no adj nodes for node"
software error topGO org.hs.eg.db
6.9 years ago natske ▴ 10
2
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6
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2.6k
views
topGO: GO terms in gene annotation do not match significant GO term output
rnaseq topgo go enrichment
updated 6.9 years ago by 68k • written 6.9 years ago by • 0
3
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9
replies
6.6k
views
topGO "invalid argument to unary operator"
software error topgo
updated 6.9 years ago by 68k • written 6.9 years ago by • 0
0
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0
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1.5k
views
topGO analysis runTest: non-numeric argument to binary operator
topGO
7.0 years ago Dave Th. • 0
211 results • Page 1 of 5
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Comment: Could we detect difference at pathway level but not significant different at gen by Chi • 0
The extrusion process affects kibble texture flavor and digestibility shaping both nutrition and taste. Balance is keyjust like in http://r…
Comment: Could we detect difference at pathway level but not significant different at gen by Chi • 0
GSVA works when gene level changes are small but pathways shift as a group. After your analysis take a quick break with https://cookieclick…
Comment: Best practice for handling large data (matrix with >2^31-1 non-zero elements) in by dan.gatti • 0
I am, but perhaps I'm not understanding how it should work. > sse = DropletUtils::read10xCounts(curr_files[1], mtx.class = 'SVT_Sparse…
Comment: Best practice for handling large data (matrix with >2^31-1 non-zero elements) in by James W. MacDonald 68k
Did you use the development version as Aaron suggested? There is an argument to read the market matrix file directly into an `SVT_SparseMat…
Comment: Best practice for handling large data (matrix with >2^31-1 non-zero elements) in by dan.gatti • 0
Was anyone else able to put the pieces together using the reply above? I read in one 10X sample using DropletUtils::read10xCounts() and thi…
Votes
Comment: Check removeBatchEffect effectiveness
Comment: Streamlining the computing time for MiloDE p-value correction in large dataset?
Answer: DESeq2 design for haplotype MPRA
A: Different logFC (log2foldchange) values for genes from limma-voom and other too
Comment: Check removeBatchEffect effectiveness
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