Showing : goseq • reset
0
votes
1
reply
68
views
package goseq seems to be not available on the latest version of R
goseq
updated 1 hour ago by 50k • written 1 day ago by • 0
1
vote
2
replies
255
views
supportedOrganisms() in goseq producing Error in names(trackIds)
goseq Bioconductor rtracklayer
8 weeks ago thomas • 0
1
vote
4
replies
431
views
goseq, warning and strange plot from nullp
goseq
3 months ago boczniak767 ▴ 720
0
votes
1
reply
604
views
Downstream analysis with Differentially Expressed Genes
DESeq2 GO goseq FunctionalAnnotation
updated 18 months ago by ▴ 10 • written 18 months ago by • 0
0
votes
5
replies
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
votes
2
replies
836
views
goseq: Wallenius Vs Fisher's Noncentral Hypergeometric Distribution
goseq
2.0 years ago Steve Pederson ▴ 170
1
vote
2
replies
822
views
Pathway analysis of RNAseq data using goseq package
Pathways goseq RNASeqData
2.2 years ago • updated 2.1 years ago m.glymenaki • 0
0
votes
0
replies
750
views
Gage pathway analysis of RNAseq graphical representation as dot plot
gage plot RNASeq goseq
updated 2.2 years ago by 41k • written 2.2 years ago by • 0
1
vote
10
replies
2.5k
views
How to run Goseq for list of ensembl gene IDs
goseq
3.1 years ago Lucky • 0
1
vote
4
replies
1.4k
views
goseq package loading issues
DESeq2 goseq
3.2 years ago avinashi • 0
3
votes
9
replies
1.9k
views
Warning message when performing Gene Ontology analysis with goseq using hg38
goseq
updated 3.2 years ago by 65k • written 3.2 years ago by • 0
2
votes
3
replies
1.7k
views
Gene Ontology Analysis of DE Genes
clusterProfiler AnnotationDbi OrgDb goseq
updated 3.3 years ago by 65k • written 3.3 years ago by ▴ 30
2
votes
2
replies
1.1k
views
Pathway analysis and GO terms analysis with goseq
KEGG Pathways GO goseq
updated 3.4 years ago by 65k • written 3.4 years ago by • 0
0
votes
1
reply
908
views
non-native GO annotation cannot be successfully introduced into Goseq
goseq rnaseq r
updated 3.6 years ago by 65k • written 3.6 years ago by • 0
1
vote
2
replies
891
views
GOSeq analysis in rice
goseq
3.9 years ago • updated 3.7 years ago Jitendra ▴ 10
0
votes
2
replies
712
views
Goseq_analysis related help
goseq
3.8 years ago kumararya563 • 0
0
votes
0
replies
474
views
go seq related help, where I need to do mapping between go term and the protein -id
goseq
3.8 years ago kumararya563 • 0
3
votes
2
replies
1.1k
views
Goseq analysis related help.
annotation goseq
updated 3.9 years ago by ★ 13k • written 3.9 years ago by • 0
0
votes
0
replies
829
views
How to identify differentially expressed genes from Reactome pathways enriched according to GOseq?
goseq go rna-seq
4.1 years ago hasse.bossenbroek • 0
4
votes
5
replies
1.8k
views
Downgrading R to 3.6.0 version (GOseq problem)
goseq installation
4.3 years ago gdalsky ▴ 40
0
votes
1
reply
2.2k
views
GO enrichment analysis graphs after goseq: any easy solutions?
go enrichment gene ontology goseq go
4.6 years ago Raito92 ▴ 60
2
votes
6
replies
1.1k
views
Can't install GOSEQ (dependency problem) on CentOS 7!
goseq r package r
updated 4.6 years ago by ★ 6.5k • written 4.6 years ago by ▴ 60
1
vote
1
reply
1.3k
views
GOseq analysis with only upregulated or downregulated genes
goseq
updated 5.0 years ago by ▴ 310 • written 5.1 years ago by ▴ 160
2
votes
2
replies
1.1k
views
Using GOseq for custom gene set enrichment test
goseq
updated 5.3 years ago by 50k • written 5.3 years ago by • 0
2
votes
2
replies
2.8k
views
How to access gene IDs associated with GO terms in GOSeq
GOseq ensemblid GO
updated 5.5 years ago by 65k • written 5.5 years ago by • 0
4
votes
10
replies
3.0k
views
Question: GoSeq: opposite pwf plot for up- and downregulated genes
goseq
8.5 years ago • updated 5.5 years ago Jakub ▴ 50
1
vote
3
replies
1.8k
views
goseq: Formatting category list for use with goseq
goseq category test
updated 5.6 years ago by 65k • written 5.6 years ago by ▴ 40
0
votes
0
replies
872
views
how to: enrichment (over representation) analysis of GWAS/QTL data distributed over a genome with GOSEQ
goseq enrichment GWAS
5.7 years ago zhu • 0
0
votes
1
reply
1.2k
views
GOseq output but strange warning message!
GOseq GO pwf goseq
5.7 years ago TB18 • 0
1
vote
1
reply
1.2k
views
Goseq output with too many GO terms per category
go goseq goterm category
updated 5.7 years ago by 50k • written 5.7 years ago by • 0
3
votes
2
replies
1.0k
views
numInCat in goseq inconsistent with value obtained from org.Hs.eg.db
goseq
updated 5.7 years ago by 65k • written 5.7 years ago by • 0
1
vote
9
replies
2.2k
views
Using goseq with unsupported organism
goseq
updated 5.8 years ago by 65k • written 5.8 years ago by • 0
0
votes
0
replies
936
views
GOseq No Underrepresented Categories
goseq go enrichment
5.8 years ago mart1139 • 0
8
votes
10
replies
1.6k
views
Genes listed in GO categories
goseq biomart
updated 5.9 years ago by 50k • written 5.9 years ago by • 0
0
votes
2
replies
878
views
goseq with hypergeometric method
goseq
updated 5.9 years ago by 50k • written 5.9 years ago by ▴ 40
0
votes
0
replies
1.3k
views
I finally solved my problem with installing "org.Hs.eg.db"!
goseq org.hs.eg.db
6.1 years ago nancyjwahl7 • 0
2
votes
6
replies
2.0k
views
Can Tximport average transcript length be used for GOSeq?
deseq2 tximport goseq
6.1 years ago casey.rimland ▴ 150
0
votes
6
replies
1.4k
views
How to link methylation code from UCSC (hg19-cg07790169) to ENSEMBL genome code (goseq procedure)
goseq methylation ensembl ucsc limma
6.2 years ago dusan.petrovic • 0
0
votes
2
replies
3.7k
views
DESeq2 followed by goseq GO-analysis: Extracting DE genes of enriched GO category
deseq2 goseq rnaseq go enrichment differential gene expression
updated 6.2 years ago by 41k • written 6.2 years ago by • 0
0
votes
3
replies
1.2k
views
What is the impact of using GOSeq to voom-adjusted RNA-seq Expressions ?
limma limma-voom goseq
updated 6.3 years ago by 50k • written 6.3 years ago by • 0
0
votes
1
reply
2.6k
views
installation of package 'goseq' had non-zero exit status
goseq installation
updated 6.4 years ago by 25k • written 6.4 years ago by • 0
0
votes
1
reply
1.7k
views
PANTHER.db- external pointer error
goseq pantherdb pathway analysis gene ontology
updated 6.4 years ago by 65k • written 6.4 years ago by ▴ 10
1
vote
2
replies
2.9k
views
GOseq: Determining ENSG IDs Associated with Genes Summarized by `numDEInCat` for Each Ontology Term
goseq gene ontology
updated 6.5 years ago by 65k • written 6.5 years ago by • 0
0
votes
1
reply
1.2k
views
Error: subscript out of bounds when using ucscGenomes() and supportedGenomes() functions in goseq and rtracklayer packages respctively
goseq rtracklayer
6.6 years ago mgdrnl • 0
2
votes
3
replies
1.7k
views
GOseq error on running nullp
goseq GO term
updated 6.6 years ago by 50k • written 6.6 years ago by • 0
0
votes
1
reply
2.0k
views
GO.db won't install for using goseq package
GO.db goseq package installation error
updated 6.6 years ago by 25k • written 6.6 years ago by • 0
0
votes
2
replies
1.6k
views
bias.data vector must have the same length as DEgenes vector!
edger goseq
updated 6.6 years ago by ★ 28k • written 6.6 years ago by ▴ 10
0
votes
0
replies
1.2k
views
gene length file for GOseq
goseq
6.6 years ago mictadlo ▴ 10
2
votes
2
replies
1.4k
views
Error in normSplitFactor(f, x)
GenomicRanges rtracklayer goseq
updated 6.6 years ago by ★ 11k • written 6.6 years ago by ▴ 10
0
votes
3
replies
1.5k
views
goseq after edgeR
edger goseq
updated 6.6 years ago by ★ 28k • written 6.6 years ago by ▴ 10
50 results • Page 1 of 1
Recent ...
Replies
Answer: How to use bootRanges to bootstrap small RNA loci (nullranges package) by Poonam • 0
Hi Michael, I think there is something wrong with the generation of nullranges. I was working with small RNA and methylation overlaps. …
Answer: Once again a "Model matrix not full rank" by swbarnes2 ★ 1.3k
Replicate numbers, like the 1 in control_1 are fine in sample names, but never add them to anything else in colData. From the computer's p…
Answer: limma Intercept vs No-intercept models completely changing DMR results? by Gordon Smyth 50k
I'll add a little bit of general advice to James' answer. You seem to have the misunderstanding that you can change the design matrix but …
Answer: package goseq seems to be not available on the latest version of R by Gordon Smyth 50k
It is true that goseq isn't available for Bioc 3.19 (as at 4 May 2024). In the meantime, you could consider using the goana() and kegga() …
Answer: limma Intercept vs No-intercept models completely changing DMR results? by James W. MacDonald 65k
This part: ``` design_intercept <- model.matrix(~Alt+Sex+Age+PC1, data=targets_Sherpa) colnames(design_intercept) <- c("AltSHP_LA","Al…
Votes
Answer: Why does GSEA on edgeR results for randomized samples give highly significant p-
Answer: limma Intercept vs No-intercept models completely changing DMR results?
Answer: CombineArrays for EPIC and EPIC V2
Answer: Too many significant genes when integrating gtex and tcga
Comment: Too many significant genes when integrating gtex and tcga
Awards • All
Popular Question to Gordon Smyth 50k
Popular Question to Zainab • 0
Popular Question to Theo ▴ 10
Popular Question to gene_bioconductor ▴ 10
Popular Question to rohitsatyam102 ▴ 20
Locations • All
United States, 12 minutes ago
France, 20 minutes ago
WEHI, Melbourne, Australia, 34 minutes ago
Australia, 39 minutes ago
United States, 51 minutes ago
Traffic: 654 users visited in the last hour
Content Search
Users
Tags
Badges
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6