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Showing :
KEGGgraph
•
reset
0
votes
0
replies
132
views
Gene names not included on KEGGgraph plots
KEGGgraph
3 months ago
hilarius_bookbinder
• 0
0
votes
1
reply
290
views
KEGGgraph parseKGML2Graph function
KEGGgraph
updated 10 months ago by
James W. MacDonald
63k • written 10 months ago by
Cathy
• 0
4
votes
2
replies
810
views
Is there any description available for KEGG Pathway Edge Types
KEGG
SystemsBiology
KEGGgraph
ontology
11 months ago
Wuschel
▴ 10
4
votes
6
replies
2.4k
views
Pathview unable to download pathways
clusterProfiler
KEGGgraph
clusterpr
KEGG
pathview
updated 12 months ago by
Guido Hooiveld
★ 3.7k • written 15 months ago by
rama
▴ 10
0
votes
3
replies
679
views
ROntoTools: Set returned by keggPathwayGraphs is missing 121 pathways reported by keggPathwayNames
KEGGREST
ROntoTools
KEGG
KEGGgraph
13 months ago
abf
▴ 30
0
votes
1
reply
532
views
Pathview error Warning: Parsing ./mmu04928.xml file failed, please check the file!
KEGGgraph
pathview
updated 15 months ago by
Guido Hooiveld
★ 3.7k • written 15 months ago by
k.jane.olczak
• 0
1
vote
2
replies
894
views
cannot find function even though KEGGgraph package supposedly installed
kegggraph
biocinstaller
updated 5.2 years ago by
Mike Smith
★ 6.1k • written 5.2 years ago by
kathleenfix
▴ 10
1
vote
2
replies
1.3k
views
How to get the latest KEGG pathway
KEGG
kegg.db
kegggraph
5.6 years ago
Raymond
▴ 20
1
vote
2
replies
973
views
possible bug in parseKGML?
kegggraph
6.1 years ago
Martin Pirkl
• 0
2
votes
11
replies
3.9k
views
Recent build and parsing error in pathview
pathview
KEGGgraph
gage
pathway
pathway analysis
6.2 years ago
Luo Weijun
★ 1.6k
0
votes
2
replies
822
views
incorrect direction in compound-gene interactions
kegggraph
6.2 years ago
AR3513
• 0
0
votes
6
replies
3.0k
views
KEGGgraph warning: "In structure(x$children, class = "XMLNodeList") :"
kegggraph
6.3 years ago
AR3513
• 0
0
votes
1
reply
756
views
objNameToList() on some particular list of objects in parent frame
tkWidgets
xml
kegggraph
updated 6.4 years ago by
James W. MacDonald
63k • written 6.4 years ago by
urwaCFC
• 0
2
votes
3
replies
2.9k
views
How to convert graphNEL object into Adjacency Matrix?
graph
kegggraph
xml
updated 6.4 years ago by
Robert Castelo
★ 3.0k • written 6.4 years ago by
urwaCFC
• 0
0
votes
5
replies
2.6k
views
retrieve human readable gene names from KEGG identifiers
kegggraph
7.6 years ago
Osvaldo
▴ 40
0
votes
7
replies
1.8k
views
Using KeggGraph's KEGGpathway2reactionGraph and mergeKEGGgraphs functions
graph
KEGGgraph
graph
KEGGgraph
10.0 years ago • updated 9.9 years ago
Zhang, Jitao David
▴ 120
1
vote
5
replies
1.7k
views
About the state of KEGG-related packages
KEGGSOAP
KEGGgraph
keggorthology
clusterProfiler
KEGGprofile
PathNet
KEGGSOAP
KEGGgraph
updated 10.2 years ago by
Luo Weijun
★ 1.6k • written 10.2 years ago by
enricoferrero
▴ 660
0
votes
0
replies
932
views
looking for tools to study additive expression effects in gene pathways/networks
Pathways
Rgraphviz
KEGGgraph
Pathways
Rgraphviz
KEGGgraph
10.4 years ago
Christopher T Gregg
▴ 210
0
votes
2
replies
1.7k
views
KEGGgraph problem
KEGGgraph
KEGGgraph
updated 10.7 years ago by
Zhang, Jitao David
▴ 120 • written 10.7 years ago by
Guest User
★ 12k
0
votes
4
replies
1.6k
views
KEGGgraph
Pathways
Organism
graph
PROcess
KEGGgraph
Pathways
Organism
graph
PROcess
KEGGgraph
10.9 years ago
Ricardo Silva
▴ 110
0
votes
2
replies
1.1k
views
KEGGgraph
graph
KEGGgraph
graph
KEGGgraph
updated 12.2 years ago by
Jitao David Zhang
▴ 340 • written 12.2 years ago by
Jing Huang
▴ 380
0
votes
3
replies
1.6k
views
Fwd: KEGGgraph / Rgraphviz dot layout
KEGGgraph
KEGGgraph
updated 12.8 years ago by
Jitao David Zhang
▴ 340 • written 12.8 years ago by
Unger, Kristian
▴ 40
0
votes
2
replies
1.1k
views
(no subject)
KEGGgraph
KEGGgraph
updated 12.8 years ago by
Jitao David Zhang
▴ 340 • written 12.8 years ago by
Yan Jiao
▴ 140
0
votes
0
replies
1.1k
views
Bioconductor Digest, Vol 93, Issue 26: How to create KEGG's pathway data for SPIA?
Organism
KEGGgraph
SPIA
Organism
KEGGgraph
SPIA
12.8 years ago
Tarca, Adi
▴ 570
0
votes
0
replies
1.0k
views
KEGGgraph and Rgraphviz for win 64
KEGGgraph
KEGGgraph
12.8 years ago
Yan Jiao
▴ 140
0
votes
1
reply
1.1k
views
About KEGGgraph supplementary information
Rgraphviz
KEGGgraph
Rgraphviz
KEGGgraph
updated 12.9 years ago by
Uzun, Alper
▴ 10 • written 12.9 years ago by
Jitao Zhang
▴ 20
0
votes
0
replies
1.0k
views
error in plotKEGGGraph
Pathways
GLAD
KEGGgraph
Pathways
GLAD
KEGGgraph
13.0 years ago
Robert M. Flight
▴ 280
0
votes
3
replies
1.2k
views
error in plotKEGGGraph
Pathways
KEGGgraph
Pathways
KEGGgraph
updated 13.0 years ago by
Pierre Neuvial
▴ 30 • written 13.0 years ago by
Jitao David Zhang
▴ 340
0
votes
1
reply
932
views
error in plotKEGGGraph
Pathways
KEGGgraph
Pathways
KEGGgraph
updated 13.2 years ago by
Jitao David Zhang
▴ 340 • written 13.2 years ago by
Robert M. Flight
▴ 280
0
votes
2
replies
1.4k
views
makeAttr() missing in KEGGgraph
KEGGgraph
KEGGgraph
updated 13.3 years ago by
Martin Morgan
25k • written 13.3 years ago by
Groot, Philip de
▴ 630
0
votes
1
reply
1.6k
views
KEGGgraph: retrieveKGML error (due to wrong ftp path)
KEGGgraph
KEGGgraph
updated 13.5 years ago by
Cristobal Fresno Rodríguez
▴ 370 • written 13.5 years ago by
Ludwig Geistlinger
▴ 50
0
votes
4
replies
1.4k
views
KEGGgraph fails on a KEGG XML file
KEGGgraph
KEGGgraph
updated 13.6 years ago by
Jitao David Zhang
▴ 340 • written 13.6 years ago by
Rajarshi Guha
▴ 120
0
votes
2
replies
1.3k
views
KEGGgraph: any way to obtain 'outcome' nodes?
Pathways
KEGGgraph
Pathways
KEGGgraph
updated 13.8 years ago by
Fraser Sim
▴ 270 • written 13.8 years ago by
Paul Shannon
★ 1.1k
0
votes
1
reply
1.3k
views
KEGGgraph bug
Pathways
Organism
SIM
KEGGgraph
Pathways
Organism
SIM
KEGGgraph
updated 13.8 years ago by
Marc Carlson
★ 7.2k • written 13.8 years ago by
Fraser Sim
▴ 270
0
votes
1
reply
852
views
KEGGgraph query
Pathways
graph
KEGGgraph
Pathways
graph
KEGGgraph
updated 13.8 years ago by
Jitao David Zhang
▴ 340 • written 13.8 years ago by
anupam sinha
▴ 270
0
votes
1
reply
1.2k
views
KEGGgraph bug
Organism
KEGGgraph
Organism
KEGGgraph
updated 13.8 years ago by
Jitao David Zhang
▴ 340 • written 13.9 years ago by
Fraser Sim
▴ 270
0
votes
3
replies
1.4k
views
Problem with KEGGgraph
Organism
hgu133plus2
KEGGgraph
Organism
hgu133plus2
KEGGgraph
updated 14.0 years ago by
Tony Chiang
▴ 570 • written 14.0 years ago by
Fraser Sim
▴ 270
0
votes
0
replies
713
views
Important KEGGgraph update (parse issue solved)
KEGGgraph
KEGGgraph
14.3 years ago
Jitao David Zhang
▴ 340
0
votes
3
replies
1.7k
views
KEGGgraph: gene ids for nodes in a pathway
KEGGgraph
KEGGgraph
updated 14.4 years ago by
Jitao David Zhang
▴ 340 • written 14.4 years ago by
Tim Smith
★ 1.1k
0
votes
4
replies
1.2k
views
KEGGGraph: some complexed proteins are orphans in graphNEL
KEGGgraph
KEGGgraph
updated 14.4 years ago by
Jitao David Zhang
▴ 340 • written 14.4 years ago by
Paul Shannon
★ 1.1k
0
votes
1
reply
1.0k
views
KEGGgraph package: KGML files working again
KEGGgraph
KEGGgraph
updated 14.4 years ago by
Markus Schmidberger
▴ 380 • written 14.4 years ago by
Jitao David Zhang
▴ 340
0
votes
7
replies
2.7k
views
Visualise KEGG pathway and highlight genes
Cancer
KEGGgraph
Cancer
KEGGgraph
updated 14.4 years ago by
Paolo Sonego
▴ 140 • written 14.4 years ago by
Daniel Brewer
★ 1.9k
0
votes
2
replies
1.3k
views
KEGGgraph, error
Organism
hgu133a
KEGGgraph
Organism
hgu133a
KEGGgraph
updated 14.4 years ago by
Jitao Zhang
▴ 20 • written 14.4 years ago by
Markus Schmidberger
▴ 380
0
votes
1
reply
924
views
KEGGgraph question
Pathways
KEGGgraph
Pathways
KEGGgraph
14.6 years ago • updated 14.5 years ago
Sim, Fraser
▴ 350
0
votes
0
replies
749
views
KEGGgraph ??
Pathways
GO
GOstats
keggorth
KEGGgraph
Pathways
GO
GOstats
keggorth
KEGGgraph
15.0 years ago
Paul Evans
▴ 180
45 results • Page
1 of 1
Recent ...
Replies
Comment: DataFrame Construction With Non-standard Column
by
ATpoint
★ 3.4k
Out of interest, `SimpleList()` works without `I()`, why is that?
Answer: DataFrame Construction With Non-standard Column
by
Hervé Pagès
16k
You need to protect the list by wrapping it in `I()`, otherwise the `DataFrame()` constructor interprets it as a list of 3 columns (so it t…
Comment: Speeding up of DelayedArray::write_block()
by
Koki
▴ 10
Thank you, I have a very clear understanding of the situation. > COO_Sparse_HDF5RealizationSink(), writeHDF5SparseArray(), COO_H5SparseArr…
Comment: Speeding up of DelayedArray::write_block()
by
Koki
▴ 10
There are a few places inside my `DelayedTensor` package that use `SparseArraySeed`. Will these stop working in next coming BioC 3.18, whe…
Comment: DelayedArray::read_sparse_block
by
Hervé Pagès
16k
No. But I will need to modify the `write_block()` method for TENxRealizationSink implemented in **HDF5Array** to make it handle blocks that…
Votes
Answer: Further analysis after limma regression output
A: collapseReplicates in DESeq2
Answer: DataFrame Construction With Non-standard Column
Steps needed to change design (relevel factors) in DESeq2
Steps needed to change design (relevel factors) in DESeq2
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