Showing : kegggraph • reset
1
vote
2
replies
374
views
KEGGgraph result difference
igraph KEGGgraph RCy3 GraphNEL
9 weeks ago • updated 5 weeks ago Arindam ▴ 80
0
votes
3
replies
578
views
pathview error
KEGGgraph KEGG
updated 6 months ago by ★ 4.1k • written 6 months ago by • 0
1
vote
1
reply
356
views
Cannabis OrgDb
KEGGgraph org.Cs.eg.db clusterProfiler KEGG AnnotationHubSoftware
updated 6 months ago by 67k • written 6 months ago by ▴ 30
4
votes
2
replies
500
views
Cannabis and KEGGgraph
KEGGREST GenomicDistributionsData KEGGgraph KEGG
updated 7 months ago by ★ 4.1k • written 7 months ago by ▴ 30
2
votes
2
replies
475
views
Error in enrichKEGG for a model organism
enrichKEGG KEGGgraph KEGG
updated 9 months ago by ★ 4.1k • written 9 months ago by • 0
0
votes
0
replies
396
views
Gene names not included on KEGGgraph plots
KEGGgraph
17 months ago hilarius_bookbinder • 0
0
votes
1
reply
683
views
KEGGgraph parseKGML2Graph function
KEGGgraph
updated 2.0 years ago by 67k • written 2.0 years ago by • 0
4
votes
2
replies
3.2k
views
Is there any description available for KEGG Pathway Edge Types
KEGG SystemsBiology KEGGgraph ontology
2.1 years ago Wuschel ▴ 10
4
votes
6
replies
4.5k
views
Pathview unable to download pathways
clusterProfiler KEGGgraph clusterpr KEGG pathview
updated 2.2 years ago by ★ 4.1k • written 2.4 years ago by ▴ 10
0
votes
3
replies
1.2k
views
ROntoTools: Set returned by keggPathwayGraphs is missing 121 pathways reported by keggPathwayNames
KEGGREST ROntoTools KEGG KEGGgraph
2.3 years ago abf ▴ 30
0
votes
1
reply
1.0k
views
Pathview error Warning: Parsing ./mmu04928.xml file failed, please check the file!
KEGGgraph pathview
updated 2.4 years ago by ★ 4.1k • written 2.4 years ago by • 0
1
vote
2
replies
1.3k
views
cannot find function even though KEGGgraph package supposedly installed
kegggraph biocinstaller
updated 6.3 years ago by ★ 6.6k • written 6.3 years ago by ▴ 10
1
vote
2
replies
2.7k
views
How to get the latest KEGG pathway
KEGG kegg.db kegggraph
6.8 years ago Raymond ▴ 20
1
vote
2
replies
1.3k
views
possible bug in parseKGML?
kegggraph
7.2 years ago Martin Pirkl • 0
2
votes
11
replies
5.1k
views
Recent build and parsing error in pathview
pathview KEGGgraph gage pathway pathway analysis
7.3 years ago Luo Weijun ★ 1.6k
0
votes
2
replies
1.2k
views
incorrect direction in compound-gene interactions
kegggraph
7.4 years ago AR3513 • 0
0
votes
6
replies
3.4k
views
KEGGgraph warning: "In structure(x$children, class = "XMLNodeList") :"
kegggraph
7.5 years ago • updated 7.4 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 7.6 years ago by 67k • written 7.6 years ago by • 0
2
votes
3
replies
3.8k
views
How to convert graphNEL object into Adjacency Matrix?
graph kegggraph xml
updated 7.6 years ago by ★ 3.4k • written 7.6 years ago by • 0
0
votes
5
replies
3.0k
views
retrieve human readable gene names from KEGG identifiers
kegggraph
8.8 years ago Osvaldo ▴ 40
0
votes
7
replies
2.4k
views
Using KeggGraph's KEGGpathway2reactionGraph and mergeKEGGgraphs functions
graph KEGGgraph graph KEGGgraph
11.1 years ago Zhang, Jitao David ▴ 120
1
vote
5
replies
2.3k
views
About the state of KEGG-related packages
KEGGSOAP KEGGgraph keggorthology clusterProfiler KEGGprofile PathNet KEGGSOAP KEGGgraph
updated 11.3 years ago by ★ 1.6k • written 11.3 years ago by ▴ 660
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
11.5 years ago Christopher T Gregg ▴ 210
0
votes
2
replies
2.0k
views
KEGGgraph problem
KEGGgraph KEGGgraph
updated 11.8 years ago by ▴ 120 • written 11.8 years ago by ★ 13k
0
votes
4
replies
2.1k
views
KEGGgraph
Pathways Organism graph PROcess KEGGgraph Pathways Organism graph PROcess KEGGgraph
12.1 years ago Ricardo Silva ▴ 110
0
votes
2
replies
1.4k
views
KEGGgraph
graph KEGGgraph graph KEGGgraph
updated 13.4 years ago by ▴ 340 • written 13.4 years ago by ▴ 380
0
votes
3
replies
2.0k
views
Fwd: KEGGgraph / Rgraphviz dot layout
KEGGgraph KEGGgraph
updated 13.9 years ago by ▴ 340 • written 13.9 years ago by ▴ 40
0
votes
2
replies
1.4k
views
(no subject)
KEGGgraph KEGGgraph
updated 14.0 years ago by ▴ 340 • written 14.0 years ago by ▴ 140
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
14.0 years ago Tarca, Adi ▴ 570
0
votes
0
replies
1.2k
views
KEGGgraph and Rgraphviz for win 64
KEGGgraph KEGGgraph
14.0 years ago Yan Jiao ▴ 140
0
votes
1
reply
1.5k
views
About KEGGgraph supplementary information
Rgraphviz KEGGgraph Rgraphviz KEGGgraph
updated 14.0 years ago by ▴ 10 • written 14.0 years ago by ▴ 20
0
votes
0
replies
1.3k
views
error in plotKEGGGraph
Pathways GLAD KEGGgraph Pathways GLAD KEGGgraph
14.1 years ago Robert M. Flight ▴ 280
0
votes
3
replies
1.6k
views
error in plotKEGGGraph
Pathways KEGGgraph Pathways KEGGgraph
updated 14.2 years ago by ▴ 30 • written 14.2 years ago by ▴ 340
0
votes
1
reply
1.3k
views
error in plotKEGGGraph
Pathways KEGGgraph Pathways KEGGgraph
updated 14.3 years ago by ▴ 340 • written 14.4 years ago by ▴ 280
0
votes
2
replies
1.8k
views
makeAttr() missing in KEGGgraph
KEGGgraph KEGGgraph
updated 14.5 years ago by 25k • written 14.5 years ago by ▴ 630
0
votes
1
reply
2.0k
views
KEGGgraph: retrieveKGML error (due to wrong ftp path)
KEGGgraph KEGGgraph
updated 14.7 years ago by ▴ 370 • written 14.7 years ago by ▴ 70
0
votes
4
replies
1.9k
views
KEGGgraph fails on a KEGG XML file
KEGGgraph KEGGgraph
updated 14.7 years ago by ▴ 340 • written 14.7 years ago by ▴ 120
0
votes
2
replies
1.7k
views
KEGGgraph: any way to obtain 'outcome' nodes?
Pathways KEGGgraph Pathways KEGGgraph
updated 14.9 years ago by ▴ 270 • written 14.9 years ago by ★ 1.1k
0
votes
1
reply
1.7k
views
KEGGgraph bug
Pathways Organism SIM KEGGgraph Pathways Organism SIM KEGGgraph
updated 15.0 years ago by ★ 7.2k • written 15.0 years ago by ▴ 270
0
votes
1
reply
1.1k
views
KEGGgraph query
Pathways graph KEGGgraph Pathways graph KEGGgraph
updated 15.0 years ago by ▴ 340 • written 15.0 years ago by ▴ 270
0
votes
1
reply
1.6k
views
KEGGgraph bug
Organism KEGGgraph Organism KEGGgraph
updated 15.0 years ago by ▴ 340 • written 15.0 years ago by ▴ 270
0
votes
3
replies
1.8k
views
Problem with KEGGgraph
Organism hgu133plus2 KEGGgraph Organism hgu133plus2 KEGGgraph
updated 15.1 years ago by ▴ 570 • written 15.1 years ago by ▴ 270
0
votes
0
replies
940
views
Important KEGGgraph update (parse issue solved)
KEGGgraph KEGGgraph
15.5 years ago Jitao David Zhang ▴ 340
0
votes
3
replies
2.2k
views
KEGGgraph: gene ids for nodes in a pathway
KEGGgraph KEGGgraph
updated 15.5 years ago by ▴ 340 • written 15.5 years ago by ★ 1.1k
0
votes
4
replies
1.7k
views
KEGGGraph: some complexed proteins are orphans in graphNEL
KEGGgraph KEGGgraph
updated 15.6 years ago by ▴ 340 • written 15.6 years ago by ★ 1.1k
0
votes
1
reply
1.3k
views
KEGGgraph package: KGML files working again
KEGGgraph KEGGgraph
updated 15.6 years ago by ▴ 380 • written 15.6 years ago by ▴ 340
0
votes
7
replies
3.6k
views
Visualise KEGG pathway and highlight genes
Cancer KEGGgraph Cancer KEGGgraph
updated 15.6 years ago by ▴ 140 • written 15.6 years ago by ★ 1.9k
0
votes
2
replies
1.7k
views
KEGGgraph, error
Organism hgu133a KEGGgraph Organism hgu133a KEGGgraph
updated 15.6 years ago by ▴ 20 • written 15.6 years ago by ▴ 380
0
votes
1
reply
1.3k
views
KEGGgraph question
Pathways KEGGgraph Pathways KEGGgraph
15.7 years ago Sim, Fraser ▴ 350
0
votes
0
replies
984
views
KEGGgraph ??
Pathways GO GOstats keggorth KEGGgraph Pathways GO GOstats keggorth KEGGgraph
16.1 years ago Paul Evans ▴ 180
50 results • Page 1 of 1
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Replies
Answer: Allele frequencies for ALL alleles of one SNP ? by Abiologist • 0
I've discovered that rsnps::ncbi_snp_query(snp_id) does actually give this information - at the bottom of the result$maf_population table. …
Answer: Identifying potentially associated gene set to drug response using GSVA by Robert Castelo ★ 3.4k
Hi, if you want to do some formal inference about the effect of a drug at RNA level, then I would recommend you doing a differential expres…
Answer: How to get The evolutionary conservation scores for lncRNAs by the phastCons100w by Robert Castelo ★ 3.4k
The `phastCons100way.UCSC.hg38` annotation package, storing conservation scores of the human genome version `hg38`, should be queried with …
Comment: Package needs internet access by firestar ▴ 20
That worked! Thanks! I created the genome file locally and uploaded that. I didn't really think that BSgenome.Hsapiens.UCSC.hg38 was only u…
Comment: limma technical repeat correction by john • 0
Hi @gordonsmyth, Thank you very much for your response. The normalization process involves multiple steps and they provide a normalised f…
Votes
Answer: Package needs internet access
Answer: Using voom-transformed counts for unsupervised analyses (PCA, Random Forest, Ela
Answer: Using voom-transformed counts for unsupervised analyses (PCA, Random Forest, Ela
Comment: Harmonizing Gene Annotations for Meta-Analysis of GSE68183 and GSE80178
Dotplot from enricher outputting very few genes
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