Showing : GOseq • reset
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News: Gene Set Enrichment Analysis in Bioconductor course
GSEABase GeneSetEnrichment goseq
9 weeks ago • updated 8 weeks ago info ▴ 10
5
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9
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2.3k
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Inconsistent nullp and goseq enrichment results across operating systems
goseq
written 9 months ago by • 0
2
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3
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1.1k
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package goseq seems to be not available on the latest version of R
goseq
updated 11 months ago by 52k • written 11 months ago by ▴ 20
1
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2
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631
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supportedOrganisms() in goseq producing Error in names(trackIds)
goseq Bioconductor rtracklayer
13 months ago thomas • 0
1
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4
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980
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goseq, warning and strange plot from nullp
goseq
15 months ago boczniak767 ▴ 740
0
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1
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899
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Downstream analysis with Differentially Expressed Genes
DESeq2 GO goseq FunctionalAnnotation
updated 2.5 years ago by ▴ 10 • written 2.5 years ago by • 0
0
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5
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3.2k
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GO enrichment with non-model organism, supplying GO mappings
clusterProfiler goseq topGO DESeq2
updated 2.9 years ago by 68k • written 2.9 years ago by ▴ 30
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2
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1.2k
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goseq: Wallenius Vs Fisher's Noncentral Hypergeometric Distribution
goseq
3.0 years ago Steve Pederson ▴ 170
1
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2
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1.2k
views
Pathway analysis of RNAseq data using goseq package
Pathways goseq RNASeqData
3.1 years ago m.glymenaki • 0
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0
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1.1k
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Gage pathway analysis of RNAseq graphical representation as dot plot
gage plot RNASeq goseq
updated 3.1 years ago by 43k • written 3.1 years ago by • 0
1
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10
replies
3.4k
views
How to run Goseq for list of ensembl gene IDs
goseq
4.1 years ago Lucky • 0
1
vote
4
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2.0k
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goseq package loading issues
DESeq2 goseq
4.2 years ago avinashi • 0
3
votes
9
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2.6k
views
Warning message when performing Gene Ontology analysis with goseq using hg38
goseq
updated 4.2 years ago by 68k • written 4.2 years ago by • 0
2
votes
3
replies
2.4k
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Gene Ontology Analysis of DE Genes
clusterProfiler AnnotationDbi OrgDb goseq
updated 4.2 years ago by 68k • written 4.2 years ago by ▴ 30
2
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2
replies
1.5k
views
Pathway analysis and GO terms analysis with goseq
KEGG Pathways GO goseq
updated 4.4 years ago by 68k • written 4.4 years ago by • 0
0
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1
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1.2k
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non-native GO annotation cannot be successfully introduced into Goseq
goseq rnaseq r
updated 4.5 years ago by 68k • written 4.5 years ago by • 0
1
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2
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1.2k
views
GOSeq analysis in rice
goseq
4.9 years ago • updated 4.7 years ago Jitendra ▴ 10
0
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2
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949
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Goseq_analysis related help
goseq
4.8 years ago kumararya563 • 0
0
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0
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663
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go seq related help, where I need to do mapping between go term and the protein -id
goseq
4.8 years ago kumararya563 • 0
3
votes
2
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1.4k
views
Goseq analysis related help.
annotation goseq
updated 4.9 years ago by ★ 13k • written 4.9 years ago by • 0
0
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0
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1.2k
views
How to identify differentially expressed genes from Reactome pathways enriched according to GOseq?
goseq go rna-seq
5.1 years ago hasse.bossenbroek • 0
4
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5
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2.3k
views
Downgrading R to 3.6.0 version (GOseq problem)
goseq installation
5.3 years ago gdalsky ▴ 40
0
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1
reply
2.6k
views
GO enrichment analysis graphs after goseq: any easy solutions?
go enrichment gene ontology goseq go
5.6 years ago Raito92 ▴ 60
2
votes
6
replies
1.5k
views
Can't install GOSEQ (dependency problem) on CentOS 7!
goseq r package r
updated 5.6 years ago by ★ 6.6k • written 5.6 years ago by ▴ 60
2
votes
1
reply
2.2k
views
GOseq analysis with only upregulated or downregulated genes
goseq
updated 6.0 years ago by ▴ 320 • written 6.0 years ago by ▴ 180
2
votes
2
replies
1.4k
views
Using GOseq for custom gene set enrichment test
goseq
updated 6.2 years ago by 52k • written 6.2 years ago by • 0
2
votes
2
replies
3.7k
views
How to access gene IDs associated with GO terms in GOSeq
GOseq ensemblid GO
updated 6.5 years ago by 68k • written 6.5 years ago by • 0
4
votes
10
replies
3.6k
views
Question: GoSeq: opposite pwf plot for up- and downregulated genes
goseq
9.5 years ago • updated 6.5 years ago Jakub ▴ 50
1
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3
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2.3k
views
goseq: Formatting category list for use with goseq
goseq category test
updated 6.6 years ago by 68k • written 6.6 years ago by ▴ 40
0
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0
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1.1k
views
how to: enrichment (over representation) analysis of GWAS/QTL data distributed over a genome with GOSEQ
goseq enrichment GWAS
6.7 years ago zhu • 0
0
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1
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1.4k
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GOseq output but strange warning message!
GOseq GO pwf goseq
6.7 years ago TB18 • 0
1
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1
reply
1.6k
views
Goseq output with too many GO terms per category
go goseq goterm category
updated 6.7 years ago by 52k • written 6.7 years ago by • 0
3
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2
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1.3k
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numInCat in goseq inconsistent with value obtained from org.Hs.eg.db
goseq
updated 6.7 years ago by 68k • written 6.7 years ago by • 0
1
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9
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2.8k
views
Using goseq with unsupported organism
goseq
updated 6.8 years ago by 68k • written 6.8 years ago by • 0
0
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0
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1.2k
views
GOseq No Underrepresented Categories
goseq go enrichment
6.8 years ago mart1139 • 0
8
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10
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2.1k
views
Genes listed in GO categories
goseq biomart
updated 6.9 years ago by 52k • written 6.9 years ago by • 0
0
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2
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1.2k
views
goseq with hypergeometric method
goseq
updated 6.9 years ago by 52k • written 6.9 years ago by ▴ 40
0
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0
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1.6k
views
I finally solved my problem with installing "org.Hs.eg.db"!
goseq org.hs.eg.db
7.1 years ago nancyjwahl7 • 0
2
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6
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2.4k
views
Can Tximport average transcript length be used for GOSeq?
deseq2 tximport goseq
7.1 years ago casey.rimland ▴ 170
0
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6
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1.9k
views
How to link methylation code from UCSC (hg19-cg07790169) to ENSEMBL genome code (goseq procedure)
goseq methylation ensembl ucsc limma
7.2 years ago dusan.petrovic • 0
0
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2
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4.2k
views
DESeq2 followed by goseq GO-analysis: Extracting DE genes of enriched GO category
deseq2 goseq rnaseq go enrichment differential gene expression
updated 7.2 years ago by 43k • written 7.2 years ago by • 0
0
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3
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1.6k
views
What is the impact of using GOSeq to voom-adjusted RNA-seq Expressions ?
limma limma-voom goseq
updated 7.2 years ago by 52k • written 7.2 years ago by • 0
0
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1
reply
2.9k
views
installation of package 'goseq' had non-zero exit status
goseq installation
updated 7.4 years ago by 25k • written 7.4 years ago by • 0
0
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1
reply
2.0k
views
PANTHER.db- external pointer error
goseq pantherdb pathway analysis gene ontology
updated 7.4 years ago by 68k • written 7.4 years ago by ▴ 10
1
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2
replies
3.4k
views
GOseq: Determining ENSG IDs Associated with Genes Summarized by `numDEInCat` for Each Ontology Term
goseq gene ontology
updated 7.5 years ago by 68k • written 7.5 years ago by • 0
0
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1
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1.4k
views
Error: subscript out of bounds when using ucscGenomes() and supportedGenomes() functions in goseq and rtracklayer packages respctively
goseq rtracklayer
7.5 years ago mgdrnl • 0
2
votes
3
replies
2.2k
views
GOseq error on running nullp
goseq GO term
updated 7.6 years ago by 52k • written 7.6 years ago by • 0
0
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1
reply
2.2k
views
GO.db won't install for using goseq package
GO.db goseq package installation error
updated 7.6 years ago by 25k • written 7.6 years ago by • 0
0
votes
2
replies
1.9k
views
bias.data vector must have the same length as DEgenes vector!
edger goseq
updated 7.6 years ago by ★ 28k • written 7.6 years ago by ▴ 10
0
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0
replies
1.6k
views
gene length file for GOseq
goseq
7.6 years ago mictadlo ▴ 10
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Comment: Bioconductor 3.20 Release Schedule by randyprice13102000 • 0
This offers much info https://bioconductor.org/checkResults/release/bioc-LATEST/
Comment: Filtering after DESeq by ATpoint ★ 4.8k
The problem is that your prefilter is not group-aware so the behaviour of seeing these sorts of outliers is expected. This is why I always …
Comment: GSEA preranked analysis downstream of DEseq2 by ATpoint ★ 4.8k
All due respect, this is what people do since pvalues exist, so this paper is not a reference, not is this a special score that merits a na…
Comment: Check removeBatchEffect effectiveness by ATpoint ★ 4.8k
> insert size, mean GC, etc... This is not a classical "batch" in the common sense, at least I've never seen this to be corrected for expl…
Answer: Check removeBatchEffect effectiveness by Gordon Smyth 52k
Your call to removeBatchEffect() is not correct because that function does not have an argument called `batch3`, meaning that the batch fac…
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Answer: DiffBind; Error: No sites have activity greater than filter value
DiffBind; Error: No sites have activity greater than filter value
remove X and Y chromosome genes in RNA-seq data using DESeq2 pipeline
How to remove X & Y chromosome genes from RNAseq data
Is it advisable to remove X and Y chromosome genes in mouse bulk RNA-seq data at the level of the count matrix?
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