Showing : keggsoap • reset
1
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16
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2.0k
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error installing KEGGSOAP
KEGGSOAP KEGGSOAP
updated 11.3 years ago by 25k • written 11.3 years ago by ▴ 420
0
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12
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2.1k
views
KEGGSOAP
KEGGSOAP KEGGSOAP
updated 18.1 years ago by ★ 7.4k • written 18.1 years ago by ▴ 30
0
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7
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1.3k
views
KEGGSOAP
KEGGSOAP KEGGSOAP
updated 17.4 years ago by ▴ 870 • written 17.5 years ago by ★ 6.0k
1
vote
5
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2.0k
views
About the state of KEGG-related packages
KEGGSOAP KEGGgraph keggorthology clusterProfiler KEGGprofile PathNet KEGGSOAP KEGGgraph
updated 10.8 years ago by ★ 1.6k • written 10.8 years ago by ▴ 660
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5
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1.2k
views
KEGGSOAP
KEGGSOAP KEGGSOAP
updated 12.2 years ago by ▴ 20 • written 12.2 years ago by ▴ 110
0
votes
4
replies
1.2k
views
KEGGSOAP problem
KEGGSOAP KEGGSOAP
updated 15.0 years ago by 6.7k • written 15.0 years ago by ▴ 350
0
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3
replies
1.3k
views
KEGGSOAP: problem with get.pathways.by.genes()
Pathways convert KEGGSOAP Pathways convert KEGGSOAP
updated 15.0 years ago by ▴ 400 • written 15.0 years ago by ▴ 30
0
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3
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1.2k
views
Retrieving KEGG pathway diagrams via KEGGSOAP
KEGGSOAP KEGGSOAP
updated 15.1 years ago by ▴ 140 • written 15.1 years ago by ▴ 120
0
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3
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926
views
libraries or commands to help with parsing or handling web based database queries
PROcess KEGGSOAP PROcess KEGGSOAP
updated 17.2 years ago by ★ 1.7k • written 17.2 years ago by ▴ 40
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3
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1.4k
views
building enzyme centric metabolic network
Network KEGGSOAP Network KEGGSOAP
updated 15.1 years ago by 25k • written 15.1 years ago by ▴ 270
0
votes
2
replies
1.4k
views
A bug in either KEGG or KEGGSOAP?
Pathways KEGGSOAP Pathways KEGGSOAP
updated 12.3 years ago by ★ 7.2k • written 12.3 years ago by ▴ 230
0
votes
2
replies
861
views
Problems installing KEGGSOAP
KEGGSOAP KEGGSOAP
19.3 years ago michael watson IAH-C ★ 3.4k
0
votes
2
replies
1.1k
views
help with KEGG or KEGGSOAP
KEGGSOAP KEGGSOAP
updated 17.5 years ago by ▴ 870 • written 17.5 years ago by ▴ 40
0
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2
replies
1.4k
views
KEGGSOAP (installation?) problem
KEGGSOAP KEGGSOAP
updated 15.0 years ago by ★ 7.2k • written 15.0 years ago by ▴ 140
0
votes
2
replies
999
views
KEGGSOAP returning blank pages
Cancer KEGGSOAP Cancer KEGGSOAP
updated 14.7 years ago by ★ 7.2k • written 14.7 years ago by ★ 1.9k
0
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2
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3.3k
views
GEOquery -> cannot open URL 'ftp://ftp.ncbi.nih.gov/pub/geo/DATA/SeriesMatrix/ ....
KEGGSOAP GEOquery KEGGSOAP GEOquery
updated 13.3 years ago by 21k • written 13.3 years ago by ▴ 340
0
votes
2
replies
1.0k
views
Problem installing KEGGSOAP
KEGGSOAP KEGGSOAP
updated 12.5 years ago by ★ 8.2k • written 12.5 years ago by ▴ 140
0
votes
2
replies
1.3k
views
pathway analysis package
RBGL KEGGSOAP RBGL KEGGSOAP
updated 19.4 years ago by 21k • written 19.4 years ago by ▴ 60
0
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2
replies
1.0k
views
KEGGSOAP: list.pathways(org) or alternative way
Pathways Organism KEGGSOAP Pathways Organism KEGGSOAP
updated 11.7 years ago by ★ 7.2k • written 11.7 years ago by ▴ 30
0
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1
reply
834
views
KEGGSOAP:: KEGGxmlns object not found
keggsoap keggrest
6.0 years ago doctor.dee005 • 0
0
votes
1
reply
830
views
Problem in KEGGSOAP package
KEGGSOAP KEGGSOAP
updated 11.3 years ago by ★ 8.2k • written 11.3 years ago by ▴ 120
0
votes
1
reply
1.5k
views
KEGGSOAP, hgu95av2.db: limited functionality
Pathways hgu95av2 probe KEGGSOAP Pathways hgu95av2 probe KEGGSOAP
updated 14.2 years ago by ★ 7.2k • written 14.2 years ago by ▴ 70
0
votes
1
reply
839
views
KEGGSOAP incomplete list.pathways
Pathways KEGGSOAP Pathways KEGGSOAP
updated 12.5 years ago by ★ 7.2k • written 12.5 years ago by ★ 13k
0
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1
reply
1.1k
views
KEGGsoap: Space required after the Public Identifier
KEGGSOAP KEGGSOAP
updated 12.3 years ago by 25k • written 12.3 years ago by ▴ 70
0
votes
1
reply
797
views
KEGGSOAP
KEGGSOAP KEGGSOAP
updated 12.3 years ago by ★ 7.2k • written 12.3 years ago by ▴ 110
0
votes
1
reply
1.2k
views
Bioconductor Install Problems
Rgraphviz KEGGSOAP Rgraphviz KEGGSOAP
updated 19.3 years ago by ★ 7.4k • written 19.3 years ago by ▴ 10
0
votes
1
reply
1.2k
views
FrozenRMA how to
Microarray Network hgu133plus2 Biobase PROcess KEGGSOAP beadarray EBImage edgeR frma
updated 12.2 years ago by ▴ 830 • written 12.2 years ago by ▴ 20
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1
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1.0k
views
KEGGSOAP: color.pathway.by.objects
Pathways KEGGSOAP Pathways KEGGSOAP
updated 16.7 years ago by ★ 2.9k • written 16.7 years ago by ▴ 30
0
votes
1
reply
786
views
KEGG pathway IDs ,issing
Annotation Cancer KEGGSOAP Annotation Cancer KEGGSOAP
updated 15.1 years ago by ★ 7.2k • written 15.1 years ago by ★ 1.9k
0
votes
0
replies
681
views
Inconsistent results returned from KEGG
KEGGSOAP KEGGSOAP
18.1 years ago michael watson IAH-C ★ 3.4k
0
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0
replies
918
views
KEGGSOAP questions: how to handle multiple annotations in R data frames, and why does a "for" loop only use one annotation.
Annotation KEGGSOAP Annotation KEGGSOAP
17.5 years ago ALAN SMITH ▴ 40
0
votes
0
replies
793
views
KEGGSOAP Question: get.pathways.by.compounds
Pathways KEGGSOAP Pathways KEGGSOAP
17.5 years ago Nianhua Li ▴ 870
0
votes
0
replies
1.0k
views
KEGGSOAP - Error in xmlName(node[[1]]) : no applicable method for "xmlName"
KEGGSOAP KEGGSOAP
19.3 years ago michael watson IAH-C ★ 3.4k
0
votes
0
replies
961
views
Problem using KEGGSOAP: multiple genes per identity
Pathways KEGGSOAP Pathways KEGGSOAP
12.3 years ago January Weiner ▴ 240
0
votes
0
replies
776
views
KEGGSOAP install problem
Cancer KEGGSOAP Cancer KEGGSOAP
15.0 years ago Daniel Brewer ★ 1.9k
0
votes
0
replies
917
views
problem with get.genes.by.pathway
Biobase reposTools KEGGSOAP Biobase reposTools KEGGSOAP
18.6 years ago Kimpel, Mark W ▴ 890
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votes
0
replies
947
views
KEGGSOAP package: I can't retrieve KEGG pathway diagrams
hgu133a KEGGSOAP hgu133a KEGGSOAP
14.8 years ago Paolo Sonego ▴ 140
0
votes
0
replies
963
views
KEGGSOAP package
KEGGSOAP KEGGSOAP
14.7 years ago Glazko, Galina ▴ 350
0
votes
0
replies
945
views
PostForm() with KEGG
GO Cancer KEGGSOAP GO Cancer KEGGSOAP
12.2 years ago Voke AO ▴ 760
0
votes
0
replies
911
views
Visulising KEGG pathways using KEGGSOAP - example code
Pathways geneplotter KEGGSOAP biomaRt GEOquery Pathways geneplotter KEGGSOAP biomaRt
15.1 years ago michael watson IAH-C ★ 3.4k
0
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0
replies
1.1k
views
KEGGREST package is available in devel
KEGGSOAP KEGGREST KEGGSOAP KEGGREST
11.3 years ago Dan Tenenbaum ★ 8.2k
0
votes
0
replies
814
views
SSOAP functions
KEGGSOAP KEGGSOAP
13.0 years ago Michael Gormley ▴ 60
0
votes
0
replies
645
views
mark.pathway.by.objects return NULL
KEGGSOAP KEGGSOAP
19.3 years ago Yi-Xiong Sean Zhou ▴ 50
43 results • Page 1 of 1
Recent ...
Replies
Comment: Cannot connect to ExperimentHub server by Jiayu • 0
Many thanks and it also resolved the same issue for me!
Comment: Help with running egsea() by Chris • 0
I tried egsea.ma and got this error: gsa = egsea.ma(numeric_matrix, vector_group, probe_annotation, contrasts = contrast_matrix, gs.an…
Comment: Getting Error in hclust(d, method = method): NA/NaN/Inf in foreign function call by angelathuynh5 • 0
Thank you for your response. To clarify, the process of making a heatmap performs rowscaling so it takes the value - (mean/std). And to res…
Comment: Method to find pathways different between 2 groups by Gordon Smyth 50k
sigPathway is another method that does not account for inter-gene correlation and which gives inflated significance, as we showed in our 20…
Answer: error in limma , contrast.matrix Number of rows of contrast matrix must match nu by James W. MacDonald 65k
I doubt you have that many contrasts. I think that is probably the number of rows. What does `dim(fit)` return (and `head(fit$coef)`)?
Votes
Answer: Cannot connect to ExperimentHub server
Answer: confused with tximport counts abundance using salmon input
Answer: Getting Error in hclust(d, method = method): NA/NaN/Inf in foreign function call
Answer: error in limma , contrast.matrix Number of rows of contrast matrix must match nu
Answer: Extremely small p-values using Limma for proteomic data
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