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49
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GAGE results interpretation with gene-foldchange as input for cases of all-negative foldchange
GO
KEGG
gage
pathview
5 days ago
danalvoronov
▴ 10
0
votes
1
reply
290
views
Error in GOmeth function of missMethyl when EPICv2 annotation is used
DNAMethylation
GO
MethylationArray
missMethyl
EPICv2
updated 11 weeks ago by
belinda.phipson
▴ 40 • written 11 weeks ago by
s.malik
• 0
1
vote
3
replies
391
views
CAMERA + Gene Ontology Gene Sets
GO
limma
CAMERA
updated 3 months ago by
Gordon Smyth
50k • written 3 months ago by
Tyler Sagendorf
▴ 10
0
votes
2
replies
471
views
GO enrichment analysis does not show any pathways in my case
GO
EnrichmentBrowser
updated 3 months ago by
James W. MacDonald
65k • written 3 months ago by
prity6459
• 0
0
votes
4
replies
593
views
Retrieve gene ontologies (GO) for genes and a species by REST API
GO
ensembldb
7 months ago
Rockbar
• 0
1
vote
1
reply
440
views
Deseq2, enrichGO and ensembl ID
go
DESeq2
updated 8 months ago by
James W. MacDonald
65k • written 8 months ago by
Alvin
• 0
0
votes
1
reply
639
views
Trouble using biomaRt to pull pathway genes from GO
GO
biomaRt
updated 10 months ago by
James W. MacDonald
65k • written 10 months ago by
cstorer
• 0
3
votes
11
replies
5.1k
views
GO enrichment analysis on Solanum lycopersicum proteomics dataset (UniProt IDs)
clusterProfiler
AnnotationHub
GO
uniprot
updated 3 months ago by
Guido Hooiveld
★ 4.0k • written 3.3 years ago by
Alberto
• 0
4
votes
4
replies
3.8k
views
Function simplify fails when argument ont is set to "ALL" in enrichGO function in package clusterProfiler
clusterProfiler
GO
GO enrichment
genesetenrichment
updated 8 weeks ago by
jandrade
• 0 • written 6.4 years ago by
Huang, Lei [BSD] - CRI
▴ 20
9 results • Page
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Answer: Errors in chromosome annotation-biomaRt
by
James W. MacDonald
65k
If you are just using HGNC symbols for the lookup, and you are trying to get NCBI IDs, then I wouldn't use `biomaRt` because it's based on …
Comment: Help with ENmix readidat
by
James W. MacDonald
65k
Please don't add to posts from two years ago. Instead make a new post. Also, please read the help page for `readidat`. The only reason to …
Comment: LRT, more than two conditions and pairwise comparisons
by
James W. MacDonald
65k
In that case, probably easiest to subset to the groups being compared.
Comment: Help with ENmix readidat
by
minardsmitha
▴ 10
Did you figure this out? I have the same issue.
Comment: LRT, more than two conditions and pairwise comparisons
by
boczniak767
▴ 720
Thank you for response, apparently I still don't know much about statistics. In fact I want to campare time-profiles [and the LRT has been …
Votes
Comment: DESeq2- Mysterious interaction suppresses DEGs
Answer: DESeq2- Mysterious interaction suppresses DEGs
Answer: Subsetting RNAseq data | voomaByGroup()
biomaRt not working - lazy table error
Answer: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it
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