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Showing :
Enrichment
•
reset
0
votes
0
replies
427
views
topGO: how do I retrieve my genes contributing to the GO term enrichment
gene
enrichment
topGO
GO
retrieve
11 months ago
Priya
• 0
0
votes
4
replies
1.2k
views
Questions about non-model organisms gene enrichment analysis
non-model
enrichment
organisms
analysis
updated 15 months ago by
Guido Hooiveld
★ 3.9k • written 18 months ago by
yuhang
• 0
0
votes
0
replies
497
views
Enrichment in genomic regions
Enrichment
clusterPro
WGCNA
21 months ago
María José
• 0
0
votes
2
replies
892
views
Seeking help in multifactor differential gene expression analysis using DESeq2. Can not get significance difference while comparing 3 time factor (…
DifferentialExpression
GeneExpression
R
enrichment
DEGseq
updated 21 months ago by
swbarnes2
★ 1.3k • written 21 months ago by
ac.mainul.mmb
• 0
1
vote
3
replies
1.8k
views
enrichKEGG results for non-model organism
clusterProfiler
enrichment
KEGG
updated 6 weeks ago by
cinzia.spagnoli
• 0 • written 22 months ago by
AP
• 0
1
vote
3
replies
5.1k
views
GSVA and ssGSEA output differences
enrichment
GSVA
enrichplot
ssGSEA
updated 24 months ago by
Robert Castelo
★ 3.1k • written 24 months ago by
Davide
• 0
0
votes
0
replies
599
views
Over-enrichment of cytobands in INDUCE-Seq
enrichment
INDUCE-Seq
2.5 years ago
Mark Dunning
★ 1.1k
2
votes
2
replies
851
views
Hypergeometric (gene set enrichment) test using "Categories" package
enrichment
hypergeometric
Categories
2.9 years ago
josmantorres
▴ 10
0
votes
7
replies
2.2k
views
topGO: GO term enrichment analysis of differentially expressed genes (!) including fold-change (!)
foldchange
topGO
DifferentialExpression
enrichment
updated 3.4 years ago by
Gordon Smyth
50k • written 3.4 years ago by
lessismore
▴ 20
4
votes
4
replies
1.2k
views
Replicating GO website analysis with bioconductor packages (topGO?)
topGO
Gene Ontology
enrichment
panther.db
updated 3.5 years ago by
Gordon Smyth
50k • written 3.5 years ago by
Brian Smith
▴ 120
1
vote
2
replies
9.0k
views
Interpreting TSS Enrichment Score Summary
atacseq
atacseqqc
tss
enrichment
updated 3.6 years ago by
Ou, Jianhong
★ 1.3k • written 3.6 years ago by
Arpi Beshlikyan
• 0
0
votes
0
replies
746
views
reactomePA error input file
r
reactomePA
enrichment
updated 3.8 years ago by
Kevin Blighe
★ 3.9k • written 3.8 years ago by
camillab.
▴ 10
3
votes
3
replies
4.4k
views
Genelist input for ClusterProfiler
R
ClusterProfiler
Enrichment
Pathway
updated 9 months ago by
Guido Hooiveld
★ 3.9k • written 3.9 years ago by
t.b.kuipers
• 0
5
votes
7
replies
2.1k
views
Alternative tools to perform GO enrichment on DE genes
go
de
enrichment
rnaseq
goana
updated 4.0 years ago by
Gordon Smyth
50k • written 4.0 years ago by
Raito92
▴ 60
2
votes
1
reply
1.2k
views
Multiple protein ids issue- which protein IDs should be selected for downstream analysis?
Proteomics
enrichment
Perseus
4.1 years ago
harelarik
▴ 60
3
votes
3
replies
1.1k
views
Discrepancies between topGO output and input
go
topGO
gene
ontology
enrichment
updated 4.7 years ago by
James W. MacDonald
65k • written 4.7 years ago by
t.bergmann
• 0
1
vote
1
reply
1.1k
views
How to retreive topGO significant IDs of genes after enrichment test ?
topGO
significant
enrichment
genes
IDs
5.2 years ago
David ROUX
▴ 20
2
votes
3
replies
931
views
How to calculate overlap between transposable elements differentially expressed in one experiment, with those expressed in another set of samples?
gene expression
enrichment
RNA-seq
DESeq2
updated 5.2 years ago by
Michael Love
41k • written 5.2 years ago by
rodrigo.duarte88
▴ 30
0
votes
0
replies
851
views
how to: enrichment (over representation) analysis of GWAS/QTL data distributed over a genome with GOSEQ
goseq
enrichment
GWAS
5.6 years ago
zhu
• 0
0
votes
0
replies
1.1k
views
Enrichment of GWAS SNPs in regulatory regions
genomicranges
enrichment
fisher
7.5 years ago
enricoferrero
▴ 660
1
vote
2
replies
2.3k
views
Bias correction for enrichment analysis of 450k methylation data => feed bias adjusted genes into IPA
goseq
450k
enrichment
updated 9.1 years ago by
belinda.phipson
▴ 40 • written 9.1 years ago by
Ed Schwalbe
▴ 10
0
votes
0
replies
1.6k
views
DOSE: an R/Bioconductor package for Disease Ontology Semantic and Enrichment analysis
enrichment
genesetenrichment
dose
gosemsim
9.4 years ago
Guangchuang Yu
★ 1.2k
22 results • Page
1 of 1
Recent ...
Replies
Comment: Minfi - estimatecellscount
by
clacarion
• 0
Thank you for your response, that's what i was thinking I will try with the rgset only and come back to tell you what's happening ! Best…
Answer: Minfi - estimatecellscount
by
James W. MacDonald
65k
Don't filter first. You are likely removing the CpGs that are used to estimate the cell counts.
Comment: limma models out of memory issue on Slurm HPC
by
SamGG
▴ 330
> Alternatively you could run each linear model fit (var1 to var6) in a separate batch run, and again that would presumably work. I think …
Comment: fgsea fork
by
shepherl
3.8k
For What its worth BiocManager should also be able to install the github remotes `BiocManager::install("ctlab/fgsea")`
Comment: fgsea fork
by
alserg
▴ 240
I'm also not sure what you mean by fork, but you also can install the latest version of fgsea directly from GitHub with `devtools::install_…
Votes
transcript name mapping between human and mouse
transcript name mapping between human and mouse
A: Error object and replacement value dimnames differ, when changing column names o
Comment: What benchmark should I use for setting the EdgeR filterByExpr min.count paramet
Comment: What benchmark should I use for setting the EdgeR filterByExpr min.count paramet
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