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Ontology
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4
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2.2k
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Is there any description available for KEGG Pathway Edge Types
KEGG
SystemsBiology
KEGGgraph
ontology
20 months ago
Wuschel
▴ 10
1
vote
0
replies
823
views
adjusted p-values with topGO elim.KS method
topGO
Ontology
DifferentialExpression
21 months ago
Kevin Gregory
▴ 10
1
vote
2
replies
756
views
gene ontologies for a set of genes
gene
ontology
2.9 years ago • updated 2.8 years ago
Bogdan
▴ 670
1
vote
5
replies
1.4k
views
Gene Ontology analysis
ontology
edger
limma
ncbi
organism package
updated 4.2 years ago by
Gordon Smyth
51k • written 4.2 years ago by
babak.loghmani
▴ 20
3
votes
3
replies
1.3k
views
Discrepancies between topGO output and input
go
topGO
gene
ontology
enrichment
updated 5.0 years ago by
James W. MacDonald
66k • written 5.0 years ago by
t.bergmann
• 0
1
vote
1
reply
1.2k
views
News:
Gene Ontology Official Workshop - Montreal, October 16, 2018
gene ontology
go
ontology
bioinformatics
genomics
News
5.7 years ago
laurent.albou
• 0
3
votes
3
replies
1.1k
views
source of GO ontology and GO annotations in Bioconductor for GO.db
GO
ontology
GO.db
updated 5.8 years ago by
apkmirrorproject
• 0 • written 5.8 years ago by
marcinjoachimiak
▴ 10
7 results • Page
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Comment: gds in GEOmetadb 2023-06-26 version is empty
by
Frederico Moraes Ferreira
▴ 100
Try axel -n 20 https://gbnci.cancer.gov/geo/GEOmetadb.sqlite.gz
Comment: Most enriched pathway is not expressed when modifying universe parameter
by
James W. MacDonald
66k
The default for `enrichGO` is to subset to those with a p-value<0.05. You don't adjust that default argument, so you shouldn't have any GO …
Answer: In a 3 group DEG analysis with three batches, can I use 1 group in all three bat
by
Michael Love
42k
You can compare A and C thanks to the sharing of samples from B across 1, 2 and 3.
Comment: Most enriched pathway is not expressed when modifying universe parameter
by
adripel
• 0
In the enrichGO results we have significant and non-significant enriched terms that are displayed. So why would an enriched term (significa…
Answer: Design formula, numeric contrast, and lfcshrink in deseq2
by
Michael Love
42k
For questions about how to construct the correct contrasts correspond to particular hypotheses, I recommend consulting with a local statist…
Votes
Comment: Most enriched pathway is not expressed when modifying universe parameter
Time-course, comparison of two groups
Answer: Behaviour of featureCounts when quantifying multi-mapping reads
Answer: GESA with certain gene list returns no result with human genom, but many result
Answer: Odd behavior of Rsubread::featureCounts when setting `nonOverlap = 0`
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