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Showing :
kegg
•
reset
0
votes
13
replies
4.6k
views
KEGG enrichment in R and gene IDs
KEGG
enrichKEGG
R
entrezid
13 months ago
Laia
▴ 10
3
votes
13
replies
2.5k
views
pathview says my nonmodel species is unknown: "species invalid"
KEGGREST
KEGG
gage
pathview
20 months ago • updated 14 months ago
nute11a
▴ 10
1
vote
13
replies
278
views
Trying to use enrichGO
clusterProfiler
GenomicDistributionsData
KEGG
4 days ago • updated 1 day ago
fernanda.backsouza
▴ 10
0
votes
13
replies
5.8k
views
gage pathways enrichment analysis
gage
pathways
kegg
updated 9.4 years ago by
Luo Weijun
★ 1.6k • written 9.4 years ago by
francesca.defilippis
▴ 100
7
votes
11
replies
2.6k
views
Analysis of pathways using edgeR
rnaseq
differential expression
edgeR
kegg
updated 6.1 years ago by
Gordon Smyth
50k • written 6.1 years ago by
fawazfebin
▴ 60
4
votes
11
replies
2.5k
views
Sudden error with KEGG analysis using gometh
KEGG
gometh
updated 11 months ago by
Aung
• 0 • written 13 months ago by
pedro-marra
▴ 10
1
vote
9
replies
2.9k
views
Gene-Metabolite and Metabolite-Pathway network from KEGG with KEGGREST
KEGG
keggrest
updated 6.0 years ago by
7kemZmani
▴ 10 • written 6.0 years ago by
hkarakurt
▴ 20
2
votes
8
replies
2.4k
views
GOseq package: Which genes are included in the "numDEInCat"?
GOseq
KEGG
7.3 years ago
Xavier
▴ 10
1
vote
7
replies
1.8k
views
Problem with universe argument in enrichKEGG
KEGG
clusterProfiler
keggorthology
updated 14 months ago by
Basti
▴ 780 • written 14 months ago by
ruiqi.li
▴ 10
4
votes
6
replies
3.1k
views
A good alternative for RDavidWebService ??
functional annotation
KEGG
RDavidWebService
8.9 years ago
alakatos
▴ 130
7
votes
6
replies
3.2k
views
Interpretation of mroast gene set analysis in R and appropriate use of the function barcode plot regarding a microarray dataset
limma
mroast
barcodeplot
KEGG
gene set testing
updated 8.4 years ago by
Gordon Smyth
50k • written 8.4 years ago by
svlachavas
▴ 830
2
votes
6
replies
1.9k
views
clusterProfiler for KEGG enrichment (non-model species) Over-Representation Analysis
KEGG
clusterProfiler
updated 3 months ago by
Guido Hooiveld
★ 3.9k • written 14 months ago by
ruiqi.li
▴ 10
6
votes
6
replies
5.0k
views
Finding enriched pathways from a gene list.
microarray
limma
kegg
ENTREZ
enrichment analysis
updated 4.2 years ago by
Gordon Smyth
50k • written 4.2 years ago by
omarrafiqued
▴ 50
4
votes
6
replies
3.6k
views
Pathview unable to download pathways
clusterProfiler
KEGGgraph
clusterpr
KEGG
pathview
updated 20 months ago by
Guido Hooiveld
★ 3.9k • written 22 months ago by
rama
▴ 10
0
votes
6
replies
3.7k
views
extracting the KEGG pathway for a set of genes
Pathways
KEGG
2.7 years ago
Bogdan
▴ 670
0
votes
5
replies
2.6k
views
Gene Symbol with Pathview
pathview
bioconductor
kegg
visualization
updated 8.5 years ago by
Luo Weijun
★ 1.6k • written 8.5 years ago by
abhinavbn
• 0
0
votes
5
replies
2.6k
views
How to use topGO and KEGG with de-novo species
topgo
edger
limma
kegga
kegg
updated 6.6 years ago by
Gordon Smyth
50k • written 6.6 years ago by
mictadlo
▴ 10
0
votes
5
replies
1.9k
views
Gene set enrichment analysis for GO categories and KEGG pathway
GO
KEGG
8.4 years ago
libya.tahani
• 0
0
votes
5
replies
1.3k
views
enrichKEGG function error
cluster
clusterProfiler
KEGG
12 months ago • updated 11 months ago
ruba-mahmoud
• 0
1
vote
5
replies
2.9k
views
KEGG enrichment for non-model
kegg
pathway analysis
non-model
gage
pathview
updated 2.8 years ago by
najib
• 0 • written 5.8 years ago by
bekah
▴ 40
0
votes
5
replies
1.2k
views
[limma::kegga] Pathway names all NA
KEGG
limma
written 13 months ago by
andrewsm
• 0
6
votes
5
replies
1.5k
views
KEGG analysis for plasmodium
KEGG
gage
gageData
pathview
updated 3.1 years ago by
Luo Weijun
★ 1.6k • written 3.1 years ago by
MOHAMMAD
• 0
2
votes
4
replies
1.7k
views
Can't find gene list for KEGG genesets
kegg
geneset
genelist
gage package
updated 6.7 years ago by
Gordon Smyth
50k • written 6.7 years ago by
sup230
▴ 30
1
vote
4
replies
890
views
How to apply KEGG enrichment analysis to the overlap of multiple contrasts in MArrayLM fit?
limma
kegg
updated 5.6 years ago by
Gordon Smyth
50k • written 5.6 years ago by
antoinefelden
▴ 10
4
votes
4
replies
1.7k
views
How I interpret this plot from pathview
pathview
kegg
r
pathway
4.5 years ago • updated 4.4 years ago
AZ
▴ 30
1
vote
4
replies
1.0k
views
pathview - a species in KEGG pathway but not in 'korg'
pathview
KEGG
Oryza_sativa
10 months ago
Jiyoung Lee
• 0
1
vote
4
replies
1.5k
views
Indirect path in KEGG, activation or inhibition?
bioconductor
graphite
kegg
pathway analysis
updated 7.2 years ago by
gabriele.sales
▴ 100 • written 7.2 years ago by
haoran.chen
• 0
5
votes
4
replies
1.6k
views
Function kegga not working for species other than the conventional ones - Pathways do not overlap with universe
kegga
limma
pathway analysis
kegg
updated 5.0 years ago by
Gordon Smyth
50k • written 5.0 years ago by
Raito92
▴ 60
4
votes
4
replies
7.8k
views
Packages for GO and KEGG analysis on RNAseq data
GO
gage
goseq
KEGG
updated 9.5 years ago by
Gordon Smyth
50k • written 9.6 years ago by
Merienne Nicolas
▴ 120
2
votes
3
replies
4.8k
views
Pathview None of the genes or compounds mapped to the pathway
pathview
pathways
KEGG
empty map
updated 2.8 years ago by
najib
• 0 • written 8.3 years ago by
Dani
▴ 20
1
vote
3
replies
1.2k
views
Many NAs using TAIR IDs for plotting KEGG pathways using pathview
KEGG
TAIR_IDs
KEGGdzPathwaysGEO
pathview
updated 16 months ago by
James W. MacDonald
65k • written 17 months ago by
Arctic
• 0
1
vote
3
replies
2.2k
views
Pathview pathview kegg.native=TRUE throws error in img
pathview
kegg
error
bioconductor
rnaseq
updated 6.5 years ago by
map2085
▴ 40 • written 7.2 years ago by
guillermo.marco
▴ 30
1
vote
3
replies
1.3k
views
Ortholog conversions of non-model organisms not present in Biomart, ensembl or KEGG
rnaseq_analysis
KEGG
nonmodel species
updated 5.6 years ago by
James W. MacDonald
65k • written 5.6 years ago by
laural710
• 0
1
vote
3
replies
1.1k
views
how to add an enrichment score to a kegg pathway enrichment analysis?
KEGG
clusterProfiler
Bioconductor
updated 12 months ago by
Guido Hooiveld
★ 3.9k • written 12 months ago by
m-bihie
▴ 10
0
votes
3
replies
1.1k
views
pathview error "negative length vectors are not allowed
pathview
kegg
KEGG
updated 6 months ago by
Benji Bromberg
▴ 20 • written 7 months ago by
Mauricio Diego
• 0
0
votes
3
replies
944
views
ROntoTools: Set returned by keggPathwayGraphs is missing 121 pathways reported by keggPathwayNames
KEGGREST
ROntoTools
KEGG
KEGGgraph
20 months ago
abf
▴ 30
1
vote
3
replies
1.8k
views
enrichKEGG results for non-model organism
clusterProfiler
enrichment
KEGG
updated 9 weeks ago by
cinzia.spagnoli
• 0 • written 22 months ago by
AP
• 0
0
votes
3
replies
1.1k
views
extracting the genes associated with a specific pathway
pathway
KEGG
annotation
annotationhub
updated 3.9 years ago by
James W. MacDonald
65k • written 3.9 years ago by
Bogdan
▴ 670
0
votes
3
replies
1.4k
views
kegga error from edgeR
edger
r
bioconductor
pathway analysis
kegg
updated 6.2 years ago by
Gordon Smyth
50k • written 6.2 years ago by
Biologist
▴ 110
0
votes
3
replies
1.4k
views
CHiPpeakAnno GO and/or KEGG results presenting
chippeakanno
go
kegg
graphics
8.0 years ago
lokapal
• 0
1
vote
3
replies
1.6k
views
Discrepancy in gene set size between gage() and geneData()
gage
gene set analysis
pathview
kegg
pathway analysis
8.2 years ago
serpalma.v
▴ 60
1
vote
2
replies
2.4k
views
Error in Pathview parsing: "Parsing ./ko00195.xml file failed, please check the file!"
pathview
KEGG
parsing
6.5 years ago • updated 6.4 years ago
ladypurrsia
▴ 10
1
vote
2
replies
1.8k
views
GeneAnswer for bacteria metagenomes
geneanswers
metagenome
kegg
updated 7.8 years ago by
Guangchuang Yu
★ 1.2k • written 9.4 years ago by
francesca.defilippis
▴ 100
0
votes
2
replies
1.2k
views
how to build gene.pathway data.frame for non-model organism
limma
kegg
topgo
dataframe
edger
6.6 years ago
mictadlo
▴ 10
0
votes
2
replies
2.3k
views
Accessing KEGG (errors w/ KEGGREST)
KEGG
keggrest
updated 7.3 years ago by
Gordon Smyth
50k • written 7.3 years ago by
sampsonj74
• 0
0
votes
2
replies
1.7k
views
retrieve kegg pathway abundances from gage analysis
gage
pathways
kegg
updated 9.2 years ago by
Luo Weijun
★ 1.6k • written 9.2 years ago by
francesca.defilippis
▴ 100
0
votes
2
replies
894
views
how can I find a pathway
kegg
KEGGREST
4.4 years ago
Bioinformatics
▴ 30
0
votes
2
replies
2.1k
views
Can't install KEGGprofile
KEGG
RNASeq
updated 2.9 years ago by
James W. MacDonald
65k • written 2.9 years ago by
Sophie
• 0
0
votes
2
replies
1.3k
views
Retrieve KEGG from protein GI
R
KEGG
KEGGREST
7.4 years ago
felipelira3
• 0
3
votes
2
replies
1.1k
views
ERROR in EnrichKEGG(), 'species should be listed' in, download method do not change
KEGG
DESeq2
biomaRt
clusterProfiler
org.Mm.eg.db
updated 8 months ago by
Guido Hooiveld
★ 3.9k • written 8 months ago by
Milan
▴ 10
50 results • Page
1 of 1
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