Showing : goseq • reset
0
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246
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Downstream analysis with Differentially Expressed Genes
DESeq2 GO goseq FunctionalAnnotation
updated 6 months ago by ▴ 10 • written 7 months ago by • 0
0
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5
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936
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GO enrichment with non-model organism, supplying GO mappings
clusterProfiler goseq topGO DESeq2
updated 12 months ago by 63k • written 12 months ago by ▴ 10
0
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2
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516
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goseq: Wallenius Vs Fisher's Noncentral Hypergeometric Distribution
goseq
13 months ago Steve Pederson ▴ 170
1
vote
2
replies
459
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Pathway analysis of RNAseq data using goseq package
Pathways goseq RNASeqData
15 months ago • updated 14 months ago m.glymenaki • 0
0
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0
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413
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Gage pathway analysis of RNAseq graphical representation as dot plot
gage plot RNASeq goseq
updated 15 months ago by 40k • written 15 months ago by • 0
1
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10
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1.7k
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How to run Goseq for list of ensembl gene IDs
goseq
2.2 years ago Lucky • 0
1
vote
4
replies
963
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goseq package loading issues
DESeq2 goseq
2.3 years ago avinashi • 0
3
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9
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1.2k
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Warning message when performing Gene Ontology analysis with goseq using hg38
goseq
updated 2.3 years ago by 63k • written 2.3 years ago by • 0
2
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3
replies
1.1k
views
Gene Ontology Analysis of DE Genes
clusterProfiler AnnotationDbi OrgDb goseq
updated 2.3 years ago by 63k • written 2.4 years ago by ▴ 20
2
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2
replies
684
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Pathway analysis and GO terms analysis with goseq
KEGG Pathways GO goseq
updated 2.5 years ago by 63k • written 2.5 years ago by • 0
0
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1
reply
579
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non-native GO annotation cannot be successfully introduced into Goseq
goseq rnaseq r
updated 2.6 years ago by 63k • written 2.6 years ago by • 0
1
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2
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569
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GOSeq analysis in rice
goseq
3.0 years ago • updated 2.8 years ago Jitendra ▴ 10
0
votes
2
replies
441
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Goseq_analysis related help
goseq
2.9 years ago kumararya563 • 0
0
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0
replies
328
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go seq related help, where I need to do mapping between go term and the protein -id
goseq
2.9 years ago kumararya563 • 0
3
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2
replies
683
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Goseq analysis related help.
annotation goseq
updated 3.0 years ago by 13k • written 3.0 years ago by • 0
0
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0
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505
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How to identify differentially expressed genes from Reactome pathways enriched according to GOseq?
goseq go rna-seq
3.2 years ago hasse.bossenbroek • 0
4
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5
replies
1.3k
views
Downgrading R to 3.6.0 version (GOseq problem)
goseq installation
3.4 years ago gdalsky ▴ 40
0
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1
reply
1.6k
views
GO enrichment analysis graphs after goseq: any easy solutions?
go enrichment gene ontology goseq go
3.7 years ago Raito92 ▴ 60
2
votes
6
replies
730
views
Can't install GOSEQ (dependency problem) on CentOS 7!
goseq r package r
updated 3.7 years ago by ★ 6.0k • written 3.7 years ago by ▴ 60
1
vote
1
reply
926
views
GOseq analysis with only upregulated or downregulated genes
goseq
updated 4.1 years ago by ▴ 310 • written 4.1 years ago by ▴ 160
2
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2
replies
726
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Using GOseq for custom gene set enrichment test
goseq
updated 4.3 years ago by 47k • written 4.3 years ago by • 0
0
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2
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1.8k
views
How to access gene IDs associated with GO terms in GOSeq
GOseq ensemblid GO
updated 4.6 years ago by 63k • written 4.6 years ago by • 0
4
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10
replies
2.5k
views
Question: GoSeq: opposite pwf plot for up- and downregulated genes
goseq
7.6 years ago • updated 4.6 years ago Jakub ▴ 50
1
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3
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1.4k
views
goseq: Formatting category list for use with goseq
goseq category test
updated 4.7 years ago by 63k • written 4.7 years ago by ▴ 30
0
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0
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627
views
how to: enrichment (over representation) analysis of GWAS/QTL data distributed over a genome with GOSEQ
goseq enrichment GWAS
4.8 years ago zhu • 0
0
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1
reply
840
views
GOseq output but strange warning message!
GOseq GO pwf goseq
4.8 years ago TB18 • 0
1
vote
1
reply
844
views
Goseq output with too many GO terms per category
go goseq goterm category
updated 4.8 years ago by 47k • written 4.8 years ago by • 0
3
votes
2
replies
747
views
numInCat in goseq inconsistent with value obtained from org.Hs.eg.db
goseq
updated 4.8 years ago by 63k • written 4.8 years ago by • 0
1
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9
replies
1.6k
views
Using goseq with unsupported organism
goseq
updated 4.9 years ago by 63k • written 4.9 years ago by • 0
0
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0
replies
691
views
GOseq No Underrepresented Categories
goseq go enrichment
4.9 years ago mart1139 • 0
8
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10
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1.2k
views
Genes listed in GO categories
goseq biomart
updated 5.0 years ago by 47k • written 5.0 years ago by • 0
0
votes
2
replies
656
views
goseq with hypergeometric method
goseq
updated 5.0 years ago by 47k • written 5.0 years ago by ▴ 40
0
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0
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1.0k
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I finally solved my problem with installing "org.Hs.eg.db"!
goseq org.hs.eg.db
5.2 years ago nancyjwahl7 • 0
2
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6
replies
1.5k
views
Can Tximport average transcript length be used for GOSeq?
deseq2 tximport goseq
5.2 years ago casey.rimland ▴ 150
0
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6
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1.1k
views
How to link methylation code from UCSC (hg19-cg07790169) to ENSEMBL genome code (goseq procedure)
goseq methylation ensembl ucsc limma
5.3 years ago dusan.petrovic • 0
0
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2
replies
3.1k
views
DESeq2 followed by goseq GO-analysis: Extracting DE genes of enriched GO category
deseq2 goseq rnaseq go enrichment differential gene expression
updated 5.3 years ago by 40k • written 5.3 years ago by • 0
0
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3
replies
862
views
What is the impact of using GOSeq to voom-adjusted RNA-seq Expressions ?
limma limma-voom goseq
updated 5.3 years ago by 47k • written 5.3 years ago by • 0
0
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1
reply
2.3k
views
installation of package 'goseq' had non-zero exit status
goseq installation
updated 5.5 years ago by 25k • written 5.5 years ago by • 0
0
votes
1
reply
1.3k
views
PANTHER.db- external pointer error
goseq pantherdb pathway analysis gene ontology
updated 5.5 years ago by 63k • written 5.5 years ago by ▴ 10
1
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2
replies
2.4k
views
GOseq: Determining ENSG IDs Associated with Genes Summarized by `numDEInCat` for Each Ontology Term
goseq gene ontology
updated 5.6 years ago by 63k • written 5.6 years ago by • 0
0
votes
1
reply
898
views
Error: subscript out of bounds when using ucscGenomes() and supportedGenomes() functions in goseq and rtracklayer packages respctively
goseq rtracklayer
5.6 years ago mgdrnl • 0
2
votes
3
replies
1.2k
views
GOseq error on running nullp
goseq GO term
updated 5.7 years ago by 47k • written 5.7 years ago by • 0
0
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1
reply
1.7k
views
GO.db won't install for using goseq package
GO.db goseq package installation error
updated 5.7 years ago by 25k • written 5.7 years ago by • 0
0
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2
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1.2k
views
bias.data vector must have the same length as DEgenes vector!
edger goseq
updated 5.7 years ago by ★ 28k • written 5.7 years ago by ▴ 10
0
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0
replies
909
views
gene length file for GOseq
goseq
5.7 years ago mictadlo ▴ 10
2
votes
2
replies
1.0k
views
Error in normSplitFactor(f, x)
GenomicRanges rtracklayer goseq
updated 5.7 years ago by 11k • written 5.7 years ago by ▴ 10
0
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3
replies
1.2k
views
goseq after edgeR
edger goseq
updated 5.7 years ago by ★ 28k • written 5.7 years ago by ▴ 10
0
votes
2
replies
1.3k
views
GOseq: Correct for gene length or read count?
goseq dexseq
5.8 years ago i.sudbery ▴ 30
1
vote
1
reply
2.4k
views
goseq: In pcls(G) : initial point very close to some inequality constraints
goseq warning message pwf mgcv
updated 5.8 years ago by ▴ 310 • written 5.8 years ago by ▴ 10
1
vote
1
reply
1.0k
views
PANTHER.db function not found
pantherdb goseq biomart
updated 5.9 years ago by ★ 6.0k • written 5.9 years ago by ▴ 10
50 results • Page 1 of 1
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Comment: Ensembl plants at annotationHub? by Bruno • 0
Hi Guido, Thanks for your fast reply the error was as said in my question "Annotation must be a GRanges object", when I tried to use the a…
Comment: Ensembl plants at annotationHub? by Guido Hooiveld ★ 3.6k
You did not show the code that resulted in that error, so we have to guess what you did. Yet, the [R package][1] `Signac` contains the func…
Comment: Query regarding phyloseq object construct with QIIME output by betterwound • 0
Thanks for sharing the code [geometry dash](https://geometrydash.io/)
Answer: Ensembl plants at annotationHub? by Bruno • 0
Hi Johannes, First, thank you so much for providing these annotations for the community. We feel often a bit left off in the plant commu…
Comment: DESeq2 on multilevel design variable by swbarnes2 ★ 1.2k
Did you relevel before or after calling DESeq?
Votes
Comment: Ensembl plants at annotationHub?
Answer: DESeq2 on multilevel design variable
Comment: Sudden error with KEGG analysis using gometh
Comment: Sudden error with KEGG analysis using gometh
Answer: Although I successfully installed the package "simpleaffy'' , I cannot library i
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Popular Question to Johannes Rainer ★ 2.0k
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