Showing : kegggraph • reset
0
votes
7
replies
3.7k
views
Visualise KEGG pathway and highlight genes
Cancer KEGGgraph Cancer KEGGgraph
updated 15.8 years ago by ▴ 140 • written 15.8 years ago by ★ 1.9k
2
votes
11
replies
5.2k
views
Recent build and parsing error in pathview
pathview KEGGgraph gage pathway pathway analysis
7.5 years ago Luo Weijun ★ 1.6k
0
votes
5
replies
3.1k
views
retrieve human readable gene names from KEGG identifiers
kegggraph
8.9 years ago Osvaldo ▴ 40
4
votes
6
replies
4.7k
views
Pathview unable to download pathways
clusterProfiler KEGGgraph clusterpr KEGG pathview
updated 2.4 years ago by ★ 4.1k • written 2.6 years ago by ▴ 10
0
votes
6
replies
3.5k
views
KEGGgraph warning: "In structure(x$children, class = "XMLNodeList") :"
kegggraph
7.6 years ago AR3513 • 0
0
votes
4
replies
1.9k
views
KEGGgraph fails on a KEGG XML file
KEGGgraph KEGGgraph
updated 14.9 years ago by ▴ 340 • written 14.9 years ago by ▴ 120
0
votes
4
replies
2.1k
views
KEGGgraph
Pathways Organism graph PROcess KEGGgraph Pathways Organism graph PROcess KEGGgraph
12.2 years ago Ricardo Silva ▴ 110
0
votes
2
replies
1.7k
views
KEGGgraph, error
Organism hgu133a KEGGgraph Organism hgu133a KEGGgraph
updated 15.8 years ago by ▴ 20 • written 15.8 years ago by ▴ 380
0
votes
7
replies
2.4k
views
Using KeggGraph's KEGGpathway2reactionGraph and mergeKEGGgraphs functions
graph KEGGgraph graph KEGGgraph
11.3 years ago Zhang, Jitao David ▴ 120
0
votes
4
replies
1.7k
views
KEGGGraph: some complexed proteins are orphans in graphNEL
KEGGgraph KEGGgraph
updated 15.7 years ago by ▴ 340 • written 15.7 years ago by ★ 1.1k
0
votes
2
replies
2.0k
views
KEGGgraph problem
KEGGgraph KEGGgraph
updated 12.0 years ago by ▴ 120 • written 12.0 years ago by ★ 13k
2
votes
3
replies
3.9k
views
How to convert graphNEL object into Adjacency Matrix?
graph kegggraph xml
updated 7.7 years ago by ★ 3.4k • written 7.7 years ago by • 0
0
votes
2
replies
1.2k
views
incorrect direction in compound-gene interactions
kegggraph
7.5 years ago AR3513 • 0
1
vote
5
replies
2.4k
views
About the state of KEGG-related packages
KEGGSOAP KEGGgraph keggorthology clusterProfiler KEGGprofile PathNet KEGGSOAP KEGGgraph
updated 11.5 years ago by ★ 1.6k • written 11.5 years ago by ▴ 660
0
votes
3
replies
2.2k
views
KEGGgraph: gene ids for nodes in a pathway
KEGGgraph KEGGgraph
updated 15.7 years ago by ▴ 340 • written 15.7 years ago by ★ 1.1k
0
votes
2
replies
1.5k
views
KEGGgraph
graph KEGGgraph graph KEGGgraph
updated 13.5 years ago by ▴ 340 • written 13.5 years ago by ▴ 380
1
vote
1
reply
401
views
Cannabis OrgDb
KEGGgraph org.Cs.eg.db clusterProfiler KEGG AnnotationHubSoftware
updated 8 months ago by 67k • written 8 months ago by ▴ 30
0
votes
1
reply
1.3k
views
KEGGgraph question
Pathways KEGGgraph Pathways KEGGgraph
15.9 years ago • updated 15.8 years ago Sim, Fraser ▴ 350
0
votes
1
reply
1.3k
views
KEGGgraph package: KGML files working again
KEGGgraph KEGGgraph
updated 15.7 years ago by ▴ 380 • written 15.7 years ago by ▴ 340
0
votes
3
replies
1.8k
views
Problem with KEGGgraph
Organism hgu133plus2 KEGGgraph Organism hgu133plus2 KEGGgraph
updated 15.3 years ago by ▴ 570 • written 15.3 years ago by ▴ 270
0
votes
1
reply
1.6k
views
KEGGgraph bug
Organism KEGGgraph Organism KEGGgraph
updated 15.2 years ago by ▴ 340 • written 15.2 years ago by ▴ 270
0
votes
1
reply
1.2k
views
KEGGgraph query
Pathways graph KEGGgraph Pathways graph KEGGgraph
updated 15.1 years ago by ▴ 340 • written 15.1 years ago by ▴ 270
0
votes
2
replies
1.8k
views
KEGGgraph: any way to obtain 'outcome' nodes?
Pathways KEGGgraph Pathways KEGGgraph
updated 15.1 years ago by ▴ 270 • written 15.1 years ago by ★ 1.1k
0
votes
1
reply
1.7k
views
KEGGgraph bug
Pathways Organism SIM KEGGgraph Pathways Organism SIM KEGGgraph
updated 15.1 years ago by ★ 7.2k • written 15.1 years ago by ▴ 270
0
votes
1
reply
2.0k
views
KEGGgraph: retrieveKGML error (due to wrong ftp path)
KEGGgraph KEGGgraph
updated 14.8 years ago by ▴ 370 • written 14.8 years ago by ▴ 70
0
votes
2
replies
1.8k
views
makeAttr() missing in KEGGgraph
KEGGgraph KEGGgraph
updated 14.6 years ago by 25k • written 14.6 years ago by ▴ 630
0
votes
1
reply
1.4k
views
error in plotKEGGGraph
Pathways KEGGgraph Pathways KEGGgraph
updated 14.5 years ago by ▴ 340 • written 14.5 years ago by ▴ 280
0
votes
3
replies
1.6k
views
error in plotKEGGGraph
Pathways KEGGgraph Pathways KEGGgraph
updated 14.3 years ago by ▴ 30 • written 14.3 years ago by ▴ 340
0
votes
1
reply
1.5k
views
About KEGGgraph supplementary information
Rgraphviz KEGGgraph Rgraphviz KEGGgraph
updated 14.2 years ago by ▴ 10 • written 14.2 years ago by ▴ 20
0
votes
2
replies
1.5k
views
(no subject)
KEGGgraph KEGGgraph
updated 14.1 years ago by ▴ 340 • written 14.1 years ago by ▴ 140
0
votes
3
replies
2.1k
views
Fwd: KEGGgraph / Rgraphviz dot layout
KEGGgraph KEGGgraph
updated 14.1 years ago by ▴ 340 • written 14.1 years ago by ▴ 40
1
vote
2
replies
1.4k
views
possible bug in parseKGML?
kegggraph
7.4 years ago Martin Pirkl • 0
1
vote
2
replies
1.3k
views
cannot find function even though KEGGgraph package supposedly installed
kegggraph biocinstaller
updated 6.5 years ago by ★ 6.6k • written 6.5 years ago by ▴ 10
1
vote
2
replies
426
views
KEGGgraph result difference
igraph KEGGgraph RCy3 GraphNEL
4 months ago • updated 3 months ago Arindam ▴ 80
2
votes
2
replies
512
views
Error in enrichKEGG for a model organism
enrichKEGG KEGGgraph KEGG
updated 11 months ago by ★ 4.1k • written 11 months ago by • 0
0
votes
3
replies
703
views
pathview error
KEGGgraph KEGG
updated 7 months ago by ★ 4.1k • written 7 months ago by • 0
4
votes
2
replies
559
views
Cannabis and KEGGgraph
KEGGREST GenomicDistributionsData KEGGgraph KEGG
updated 8 months ago by ★ 4.1k • written 8 months ago by ▴ 30
0
votes
1
reply
722
views
KEGGgraph parseKGML2Graph function
KEGGgraph
updated 2.2 years ago by 67k • written 2.2 years ago by • 0
0
votes
1
reply
1.0k
views
Pathview error Warning: Parsing ./mmu04928.xml file failed, please check the file!
KEGGgraph pathview
updated 2.6 years ago by ★ 4.1k • written 2.6 years ago by • 0
4
votes
2
replies
3.5k
views
Is there any description available for KEGG Pathway Edge Types
KEGG SystemsBiology KEGGgraph ontology
2.2 years ago Wuschel ▴ 10
0
votes
1
reply
1.1k
views
objNameToList() on some particular list of objects in parent frame
tkWidgets xml kegggraph
updated 7.7 years ago by 67k • written 7.7 years ago by • 0
0
votes
0
replies
1.2k
views
looking for tools to study additive expression effects in gene pathways/networks
Pathways Rgraphviz KEGGgraph Pathways Rgraphviz KEGGgraph
11.7 years ago Christopher T Gregg ▴ 210
0
votes
3
replies
1.3k
views
ROntoTools: Set returned by keggPathwayGraphs is missing 121 pathways reported by keggPathwayNames
KEGGREST ROntoTools KEGG KEGGgraph
2.4 years ago abf ▴ 30
0
votes
0
replies
1.5k
views
Bioconductor Digest, Vol 93, Issue 26: How to create KEGG's pathway data for SPIA?
Organism KEGGgraph SPIA Organism KEGGgraph SPIA
14.1 years ago Tarca, Adi ▴ 570
0
votes
0
replies
1.2k
views
KEGGgraph and Rgraphviz for win 64
KEGGgraph KEGGgraph
14.1 years ago Yan Jiao ▴ 140
0
votes
0
replies
965
views
Important KEGGgraph update (parse issue solved)
KEGGgraph KEGGgraph
15.6 years ago Jitao David Zhang ▴ 340
0
votes
0
replies
1.0k
views
KEGGgraph ??
Pathways GO GOstats keggorth KEGGgraph Pathways GO GOstats keggorth KEGGgraph
16.3 years ago Paul Evans ▴ 180
1
vote
2
replies
2.9k
views
How to get the latest KEGG pathway
KEGG kegg.db kegggraph
6.9 years ago Raymond ▴ 20
0
votes
0
replies
416
views
Gene names not included on KEGGgraph plots
KEGGgraph
19 months ago hilarius_bookbinder • 0
0
votes
0
replies
1.3k
views
error in plotKEGGGraph
Pathways GLAD KEGGgraph Pathways GLAD KEGGgraph
14.3 years ago Robert M. Flight ▴ 280
50 results • Page 1 of 1
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Answer: promoters_txdb <- promoters(txdb, upstream = 2000) is not 2000 by James W. MacDonald 67k
If you use `promoters` and do not provide an argument for something that has a default, you will get the default argument. Your last call t…
Comment: org.Hs.eg.db issue by k.panov • 0
installed R on another PC, works perfectly. ergo, problem outside of R probably..... :-(
Comment: MBDseq analysis using qsea package by Lukas ▴ 20
Hi, I checked in with Matthias and here is his response: You need to indicate "samples": "The indices of the samples for which individu…
Comment: DESeq2 analysis with transcript counts by sindhuri • 0
Thank you for the response. Currently I am using the R studio for analysis and Im running DESeq2 for analysis of the **transcript counts.ts…
Comment: iam not able to do retrive data using GEOquery R package by James W. MacDonald 67k
Another alternative is to use the `GEOmetadb` package ([vignette here)][1], which will allow you to make queries to identify GEO datasets t…
Votes
A: Linear regression in DESeq2
Answer: Is there any chance to solve "the model matrix is not full rank" in DESeq2?
Answer: Issue carrying out DiffBind Analysis at a predefined peak set
Answer: Differential variability modelling with vst() expression
Answer: Differential variability modelling with vst() expression
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