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goana
•
reset
15
votes
18
replies
4.0k
views
Is goana function for Gene Ontology enrichement analysis suitable for both edgeR and DESeq2 DEGs lists?
DESeq2
edgeR
goana
GO
updated 2.6 years ago by
Gordon Smyth
51k • written 2.6 years ago by
Raito92
▴ 60
6
votes
10
replies
5.7k
views
goana and "No annotated genes found in universe" even with Entrez gene ids
goana
edger
updated 2.8 years ago by
Gordon Smyth
51k • written 5.3 years ago by
matrs
▴ 10
5
votes
7
replies
2.6k
views
Alternative tools to perform GO enrichment on DE genes
go
de
enrichment
rnaseq
goana
updated 4.6 years ago by
Gordon Smyth
51k • written 4.6 years ago by
Raito92
▴ 60
15
votes
6
replies
6.6k
views
goana limma- extract list of DE genes and genes in the enriched GO terms?
limma
goana
updated 9.3 years ago by
Gordon Smyth
51k • written 9.3 years ago by
carl.mann
▴ 20
3
votes
6
replies
2.6k
views
Strange output from goana()
edger
goana
updated 7.7 years ago by
Gordon Smyth
51k • written 7.7 years ago by
cronanz
• 0
3
votes
4
replies
1.5k
views
Cannot retrieve DE genes from goana GO terms
limma
goana
edger
updated 6.3 years ago by
Aaron Lun
★ 28k • written 6.3 years ago by
b.nota
▴ 370
0
votes
4
replies
2.1k
views
need help with microarray GO enrichment using goana
goana
limma
updated 8.0 years ago by
Gordon Smyth
51k • written 8.0 years ago by
mat149
▴ 80
0
votes
4
replies
3.4k
views
No annotated genes found in universe error using goana and kegga
limma
goana
gene set enrichment
7.0 years ago
emy_66
• 0
0
votes
3
replies
604
views
Agilent Microarray Gene Oncology analysis gone wrong
AgilentChip
limma
goana
updated 10 months ago by
SamGG
▴ 350 • written 10 months ago by
samagbeyimodupe
• 0
4
votes
3
replies
1.5k
views
including information indicating upregulation/downregulation of genes in goana()
edger
goana
updated 8.2 years ago by
James W. MacDonald
67k • written 8.2 years ago by
jhj89
▴ 10
0
votes
3
replies
2.7k
views
Using kegga and goana for Plants
edger
goana
kegga
updated 6.7 years ago by
Gordon Smyth
51k • written 6.7 years ago by
jfreixas
• 0
0
votes
3
replies
1.4k
views
UnProducible error with goana and kegga function
limma
goana
kegga
updated 5.1 years ago by
Gordon Smyth
51k • written 5.1 years ago by
Ahdee
▴ 50
1
vote
2
replies
1.1k
views
Results Goana after edgeR pipeline
EdgeR
Bioinformatics
Goana
3.2 years ago
Barista
• 0
3
votes
2
replies
4.9k
views
No genes found in universe : goana error
edger
goana
gene ontology
7.1 years ago • updated 7.0 years ago
fawazfebin
▴ 60
0
votes
2
replies
1.6k
views
prior.prob has opposite effects in goana and kegga?
limma
missMethyl
gometh
goana
kegga
updated 7.3 years ago by
Gordon Smyth
51k • written 7.5 years ago by
Jenny Drnevich
★ 2.0k
0
votes
0
replies
3.3k
views
Create a Gene Enrichment GO plot from goana output
goana
RNASeq
edgeR
RnaSeq
GO
2.6 years ago
Raito92
▴ 60
16 results • Page
1 of 1
Recent ...
Replies
Answer: single cell RNA seq pseudobulk batch correction
by
James W. MacDonald
67k
You can exclude the females from the non-responders.
Answer: Normalized counts to be used in decoupleR from deseq2 results
by
James W. MacDonald
67k
No, you never use normalized counts for anything but plotting. Can you point out the example that uses normalized counts?
Comment: incomplete official symbol mitochondrial genes in org.Hs.eg.db?
by
James W. MacDonald
67k
If you care to know more about the process, there is a [GitHub with all the code][1]. It's pretty complicated though - the readme alone is …
Comment: incomplete official symbol mitochondrial genes in org.Hs.eg.db?
by
Guido Hooiveld
★ 4.1k
Thanks; I did not know which file exactly is being used. Good catch regarding the discrepancy between the 2 web pages. I will get in touch …
Answer: incomplete official symbol mitochondrial genes in org.Hs.eg.db?
by
James W. MacDonald
67k
The data for the `OrgDb` packages comes directly from NCBI, and in this case the symbols come from the gene_info.gz file you [can get from …
Votes
Comment: Extension to knitr/Rmarkdown to ignore only specific warnings (not all) in a chu
Comment: Extension to knitr/Rmarkdown to ignore only specific warnings (not all) in a chu
Comment: incomplete official symbol mitochondrial genes in org.Hs.eg.db?
A: DESeq2: Is it possible to convert read counts to expression values via TPM and r
Comment: limma technical repeat correction
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51k
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