Showing : KEGGgraph • reset
1
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2
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558
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KEGGgraph result difference
igraph KEGGgraph RCy3 GraphNEL
7 months ago • updated 6 months ago Arindam ▴ 80
0
votes
3
replies
947
views
pathview error
KEGGgraph KEGG
updated 11 months ago by ★ 4.1k • written 11 months ago by • 0
1
vote
1
reply
492
views
Cannabis OrgDb
KEGGgraph org.Cs.eg.db clusterProfiler KEGG AnnotationHubSoftware
updated 12 months ago by 68k • written 12 months ago by ▴ 30
4
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2
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683
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Cannabis and KEGGgraph
KEGGREST GenomicDistributionsData KEGGgraph KEGG
updated 12 months ago by ★ 4.1k • written 12 months ago by ▴ 30
2
votes
2
replies
594
views
Error in enrichKEGG for a model organism
enrichKEGG KEGGgraph KEGG
updated 14 months ago by ★ 4.1k • written 14 months ago by • 0
0
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0
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449
views
Gene names not included on KEGGgraph plots
KEGGgraph
22 months ago hilarius_bookbinder • 0
0
votes
1
reply
798
views
KEGGgraph parseKGML2Graph function
KEGGgraph
updated 2.4 years ago by 68k • written 2.4 years ago by • 0
4
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2
replies
4.3k
views
Is there any description available for KEGG Pathway Edge Types
KEGG SystemsBiology KEGGgraph ontology
2.5 years ago Wuschel ▴ 10
4
votes
6
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5.2k
views
Pathview unable to download pathways
clusterProfiler KEGGgraph clusterpr KEGG pathview
updated 2.6 years ago by ★ 4.1k • written 2.8 years ago by ▴ 10
0
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3
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1.4k
views
ROntoTools: Set returned by keggPathwayGraphs is missing 121 pathways reported by keggPathwayNames
KEGGREST ROntoTools KEGG KEGGgraph
2.7 years ago abf ▴ 30
0
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1
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1.1k
views
Pathview error Warning: Parsing ./mmu04928.xml file failed, please check the file!
KEGGgraph pathview
updated 2.8 years ago by ★ 4.1k • written 2.9 years ago by • 0
1
vote
2
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1.4k
views
cannot find function even though KEGGgraph package supposedly installed
kegggraph biocinstaller
updated 6.8 years ago by ★ 6.6k • written 6.8 years ago by ▴ 10
1
vote
2
replies
3.5k
views
How to get the latest KEGG pathway
KEGG kegg.db kegggraph
7.2 years ago Raymond ▴ 20
1
vote
2
replies
1.5k
views
possible bug in parseKGML?
kegggraph
7.6 years ago Martin Pirkl • 0
2
votes
11
replies
5.5k
views
Recent build and parsing error in pathview
pathview KEGGgraph gage pathway pathway analysis
7.8 years ago Luo Weijun ★ 1.6k
0
votes
2
replies
1.3k
views
incorrect direction in compound-gene interactions
kegggraph
7.8 years ago AR3513 • 0
0
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6
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3.6k
views
KEGGgraph warning: "In structure(x$children, class = "XMLNodeList") :"
kegggraph
7.9 years ago • updated 7.8 years ago AR3513 • 0
0
votes
1
reply
1.1k
views
objNameToList() on some particular list of objects in parent frame
tkWidgets xml kegggraph
updated 8.0 years ago by 68k • written 8.0 years ago by • 0
2
votes
3
replies
4.1k
views
How to convert graphNEL object into Adjacency Matrix?
graph kegggraph xml
updated 8.0 years ago by ★ 3.4k • written 8.0 years ago by • 0
0
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5
replies
3.2k
views
retrieve human readable gene names from KEGG identifiers
kegggraph
9.2 years ago Osvaldo ▴ 40
0
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7
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2.6k
views
Using KeggGraph's KEGGpathway2reactionGraph and mergeKEGGgraphs functions
graph KEGGgraph graph KEGGgraph
11.6 years ago • updated 11.5 years ago Zhang, Jitao David ▴ 120
1
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5
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2.5k
views
About the state of KEGG-related packages
KEGGSOAP KEGGgraph keggorthology clusterProfiler KEGGprofile PathNet KEGGSOAP KEGGgraph
updated 11.7 years ago by ★ 1.6k • written 11.7 years ago by ▴ 680
0
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0
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1.2k
views
looking for tools to study additive expression effects in gene pathways/networks
Pathways Rgraphviz KEGGgraph Pathways Rgraphviz KEGGgraph
11.9 years ago Christopher T Gregg ▴ 210
0
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2
replies
2.1k
views
KEGGgraph problem
KEGGgraph KEGGgraph
updated 12.2 years ago by ▴ 120 • written 12.2 years ago by ★ 13k
0
votes
4
replies
2.2k
views
KEGGgraph
Pathways Organism graph PROcess KEGGgraph Pathways Organism graph PROcess KEGGgraph
12.5 years ago Ricardo Silva ▴ 110
0
votes
2
replies
1.5k
views
KEGGgraph
graph KEGGgraph graph KEGGgraph
updated 13.8 years ago by ▴ 340 • written 13.8 years ago by ▴ 380
0
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3
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2.2k
views
Fwd: KEGGgraph / Rgraphviz dot layout
KEGGgraph KEGGgraph
updated 14.4 years ago by ▴ 340 • written 14.4 years ago by ▴ 40
0
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2
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1.5k
views
(no subject)
KEGGgraph KEGGgraph
updated 14.4 years ago by ▴ 340 • written 14.4 years ago by ▴ 140
0
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0
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1.6k
views
Bioconductor Digest, Vol 93, Issue 26: How to create KEGG's pathway data for SPIA?
Organism KEGGgraph SPIA Organism KEGGgraph SPIA
14.4 years ago Tarca, Adi ▴ 570
0
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0
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1.3k
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KEGGgraph and Rgraphviz for win 64
KEGGgraph KEGGgraph
14.4 years ago Yan Jiao ▴ 140
0
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1
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1.6k
views
About KEGGgraph supplementary information
Rgraphviz KEGGgraph Rgraphviz KEGGgraph
updated 14.5 years ago by ▴ 10 • written 14.5 years ago by ▴ 20
0
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0
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1.4k
views
error in plotKEGGGraph
Pathways GLAD KEGGgraph Pathways GLAD KEGGgraph
14.6 years ago Robert M. Flight ▴ 280
0
votes
3
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1.7k
views
error in plotKEGGGraph
Pathways KEGGgraph Pathways KEGGgraph
updated 14.6 years ago by ▴ 30 • written 14.6 years ago by ▴ 340
0
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1
reply
1.4k
views
error in plotKEGGGraph
Pathways KEGGgraph Pathways KEGGgraph
updated 14.8 years ago by ▴ 340 • written 14.8 years ago by ▴ 280
0
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2
replies
1.9k
views
makeAttr() missing in KEGGgraph
KEGGgraph KEGGgraph
updated 14.9 years ago by 25k • written 14.9 years ago by ▴ 630
0
votes
1
reply
2.0k
views
KEGGgraph: retrieveKGML error (due to wrong ftp path)
KEGGgraph KEGGgraph
updated 15.1 years ago by ▴ 370 • written 15.1 years ago by ▴ 70
0
votes
4
replies
2.0k
views
KEGGgraph fails on a KEGG XML file
KEGGgraph KEGGgraph
updated 15.1 years ago by ▴ 340 • written 15.1 years ago by ▴ 120
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2
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1.9k
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KEGGgraph: any way to obtain 'outcome' nodes?
Pathways KEGGgraph Pathways KEGGgraph
updated 15.4 years ago by ▴ 270 • written 15.4 years ago by ★ 1.1k
0
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1
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1.7k
views
KEGGgraph bug
Pathways Organism SIM KEGGgraph Pathways Organism SIM KEGGgraph
updated 15.4 years ago by ★ 7.2k • written 15.4 years ago by ▴ 270
0
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1
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1.2k
views
KEGGgraph query
Pathways graph KEGGgraph Pathways graph KEGGgraph
updated 15.4 years ago by ▴ 340 • written 15.4 years ago by ▴ 270
0
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1
reply
1.7k
views
KEGGgraph bug
Organism KEGGgraph Organism KEGGgraph
updated 15.4 years ago by ▴ 340 • written 15.4 years ago by ▴ 270
0
votes
3
replies
1.9k
views
Problem with KEGGgraph
Organism hgu133plus2 KEGGgraph Organism hgu133plus2 KEGGgraph
updated 15.5 years ago by ▴ 570 • written 15.5 years ago by ▴ 270
0
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0
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1.0k
views
Important KEGGgraph update (parse issue solved)
KEGGgraph KEGGgraph
15.9 years ago Jitao David Zhang ▴ 340
0
votes
3
replies
2.3k
views
KEGGgraph: gene ids for nodes in a pathway
KEGGgraph KEGGgraph
updated 16.0 years ago by ▴ 340 • written 16.0 years ago by ★ 1.1k
0
votes
4
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1.8k
views
KEGGGraph: some complexed proteins are orphans in graphNEL
KEGGgraph KEGGgraph
updated 16.0 years ago by ▴ 340 • written 16.0 years ago by ★ 1.1k
0
votes
1
reply
1.3k
views
KEGGgraph package: KGML files working again
KEGGgraph KEGGgraph
updated 16.0 years ago by ▴ 380 • written 16.0 years ago by ▴ 340
0
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7
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3.9k
views
Visualise KEGG pathway and highlight genes
Cancer KEGGgraph Cancer KEGGgraph
updated 16.0 years ago by ▴ 140 • written 16.0 years ago by ★ 1.9k
0
votes
2
replies
1.8k
views
KEGGgraph, error
Organism hgu133a KEGGgraph Organism hgu133a KEGGgraph
updated 16.0 years ago by ▴ 20 • written 16.0 years ago by ▴ 380
0
votes
1
reply
1.4k
views
KEGGgraph question
Pathways KEGGgraph Pathways KEGGgraph
16.2 years ago • updated 16.1 years ago Sim, Fraser ▴ 350
0
votes
0
replies
1.1k
views
KEGGgraph ??
Pathways GO GOstats keggorth KEGGgraph Pathways GO GOstats keggorth KEGGgraph
16.6 years ago Paul Evans ▴ 180
50 results • Page 1 of 1
Recent ...
Replies
Comment: CluserProfiler message "No gene can be mapped" by Carolina • 0
There is, the overlap that reads out is ( Genes in common: 368 of 368 ). Here is the link for [background genes][1], [term2gene][2], [term2…
Comment: Differing results with DESeq2 by JKim • 0
My two cents. I think it would be more straightforward if you use cellmeans model. Have a look at [A guide to creating design matrices for …
Answer: CluserProfiler message "No gene can be mapped" by James W. MacDonald 68k
Your gene IDs are things like this: `Mpyr-NLJ1B.v3.hap1.scaffold1.g290550`, and the genes in your term2gene table are things like this: `Mp…
Answer: RNA-seq input to GRaNIE by James W. MacDonald 68k
This is [covered in the vignette.][1] [1]: https://bioconductor.org/packages/release/bioc/vignettes/GRaNIE/inst/doc/GRaNIE_packageDe…
Answer: Help using reduceSimMatrix with a custom annotation by sergisayolspuig ▴ 80
Hi there, `reduceSimMatrix()` expects a "GOALL" keytype in the OrgDb object when called with `children=TRUE` (which is the default for thi…
Votes
remove X and Y chromosome genes in RNA-seq data using DESeq2 pipeline
How to remove X & Y chromosome genes from RNAseq data
Is it advisable to remove X and Y chromosome genes in mouse bulk RNA-seq data at the level of the count matrix?
A: Unbalanced experiment with multiple samples from each patient.
A: Understanding contrasts limma
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