Showing : keggsoap • reset
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KEGGSOAP:: KEGGxmlns object not found
keggsoap keggrest
6.8 years ago doctor.dee005 • 0
1
vote
5
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2.4k
views
About the state of KEGG-related packages
KEGGSOAP KEGGgraph keggorthology clusterProfiler KEGGprofile PathNet KEGGSOAP KEGGgraph
updated 11.6 years ago by ★ 1.6k • written 11.6 years ago by ▴ 680
1
vote
16
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2.4k
views
error installing KEGGSOAP
KEGGSOAP KEGGSOAP
updated 12.1 years ago by 25k • written 12.1 years ago by ▴ 420
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0
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1.3k
views
KEGGREST package is available in devel
KEGGSOAP KEGGREST KEGGSOAP KEGGREST
12.1 years ago Dan Tenenbaum ★ 8.2k
0
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1
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946
views
Problem in KEGGSOAP package
KEGGSOAP KEGGSOAP
updated 12.2 years ago by ★ 8.2k • written 12.2 years ago by ▴ 120
0
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2
replies
1.1k
views
KEGGSOAP: list.pathways(org) or alternative way
Pathways Organism KEGGSOAP Pathways Organism KEGGSOAP
updated 12.5 years ago by ★ 7.2k • written 12.5 years ago by ▴ 30
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5
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1.4k
views
KEGGSOAP
KEGGSOAP KEGGSOAP
updated 13.0 years ago by ▴ 20 • written 13.0 years ago by ▴ 110
0
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1
reply
1.5k
views
FrozenRMA how to
Microarray Network hgu133plus2 Biobase PROcess KEGGSOAP beadarray EBImage edgeR frma
updated 13.0 years ago by ▴ 830 • written 13.0 years ago by ▴ 20
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1.1k
views
PostForm() with KEGG
GO Cancer KEGGSOAP GO Cancer KEGGSOAP
13.0 years ago Voke AO ▴ 760
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0
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1.1k
views
Problem using KEGGSOAP: multiple genes per identity
Pathways KEGGSOAP Pathways KEGGSOAP
13.1 years ago January Weiner ▴ 240
0
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2
replies
1.6k
views
A bug in either KEGG or KEGGSOAP?
Pathways KEGGSOAP Pathways KEGGSOAP
updated 13.1 years ago by ★ 7.2k • written 13.1 years ago by ▴ 230
0
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1
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918
views
KEGGSOAP
KEGGSOAP KEGGSOAP
updated 13.1 years ago by ★ 7.2k • written 13.1 years ago by ▴ 110
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1
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1.3k
views
KEGGsoap: Space required after the Public Identifier
KEGGSOAP KEGGSOAP
updated 13.2 years ago by 25k • written 13.2 years ago by ▴ 70
0
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1
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957
views
KEGGSOAP incomplete list.pathways
Pathways KEGGSOAP Pathways KEGGSOAP
updated 13.3 years ago by ★ 7.2k • written 13.3 years ago by ★ 13k
0
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2
replies
1.2k
views
Problem installing KEGGSOAP
KEGGSOAP KEGGSOAP
updated 13.3 years ago by ★ 8.2k • written 13.3 years ago by ▴ 140
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0
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924
views
SSOAP functions
KEGGSOAP KEGGSOAP
13.8 years ago Michael Gormley ▴ 60
0
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2
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3.6k
views
GEOquery -> cannot open URL 'ftp://ftp.ncbi.nih.gov/pub/geo/DATA/SeriesMatrix/ ....
KEGGSOAP GEOquery KEGGSOAP GEOquery
updated 14.1 years ago by 21k • written 14.1 years ago by ▴ 340
0
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1
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1.7k
views
KEGGSOAP, hgu95av2.db: limited functionality
Pathways hgu95av2 probe KEGGSOAP Pathways hgu95av2 probe KEGGSOAP
updated 15.0 years ago by ★ 7.2k • written 15.0 years ago by ▴ 70
0
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2
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1.1k
views
KEGGSOAP returning blank pages
Cancer KEGGSOAP Cancer KEGGSOAP
updated 15.5 years ago by ★ 7.2k • written 15.5 years ago by ★ 1.9k
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0
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1.1k
views
KEGGSOAP package
KEGGSOAP KEGGSOAP
15.6 years ago Glazko, Galina ▴ 350
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0
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1.1k
views
KEGGSOAP package: I can't retrieve KEGG pathway diagrams
hgu133a KEGGSOAP hgu133a KEGGSOAP
15.7 years ago Paolo Sonego ▴ 140
0
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3
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1.5k
views
KEGGSOAP: problem with get.pathways.by.genes()
Pathways convert KEGGSOAP Pathways convert KEGGSOAP
updated 15.8 years ago by ▴ 400 • written 15.8 years ago by ▴ 30
0
votes
0
replies
894
views
KEGGSOAP install problem
Cancer KEGGSOAP Cancer KEGGSOAP
15.8 years ago Daniel Brewer ★ 1.9k
0
votes
4
replies
1.4k
views
KEGGSOAP problem
KEGGSOAP KEGGSOAP
updated 15.9 years ago by 6.7k • written 15.9 years ago by ▴ 350
0
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2
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1.6k
views
KEGGSOAP (installation?) problem
KEGGSOAP KEGGSOAP
updated 15.9 years ago by ★ 7.2k • written 15.9 years ago by ▴ 140
0
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3
replies
1.6k
views
building enzyme centric metabolic network
Network KEGGSOAP Network KEGGSOAP
updated 15.9 years ago by 25k • written 15.9 years ago by ▴ 270
0
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3
replies
1.5k
views
Retrieving KEGG pathway diagrams via KEGGSOAP
KEGGSOAP KEGGSOAP
updated 15.9 years ago by ▴ 140 • written 15.9 years ago by ▴ 120
0
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0
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1.1k
views
Visulising KEGG pathways using KEGGSOAP - example code
Pathways geneplotter KEGGSOAP biomaRt GEOquery Pathways geneplotter KEGGSOAP biomaRt
15.9 years ago michael watson IAH-C ★ 3.4k
0
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1
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939
views
KEGG pathway IDs ,issing
Annotation Cancer KEGGSOAP Annotation Cancer KEGGSOAP
updated 15.9 years ago by ★ 7.2k • written 15.9 years ago by ★ 1.9k
0
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1
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1.2k
views
KEGGSOAP: color.pathway.by.objects
Pathways KEGGSOAP Pathways KEGGSOAP
updated 17.5 years ago by ★ 2.9k • written 17.5 years ago by ▴ 30
0
votes
3
replies
1.1k
views
libraries or commands to help with parsing or handling web based database queries
PROcess KEGGSOAP PROcess KEGGSOAP
updated 18.0 years ago by ★ 1.7k • written 18.0 years ago by ▴ 40
0
votes
7
replies
1.6k
views
KEGGSOAP
KEGGSOAP KEGGSOAP
updated 18.3 years ago by ▴ 870 • written 18.3 years ago by ★ 6.0k
0
votes
0
replies
916
views
KEGGSOAP Question: get.pathways.by.compounds
Pathways KEGGSOAP Pathways KEGGSOAP
18.3 years ago Nianhua Li ▴ 870
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0
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1.1k
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
18.3 years ago ALAN SMITH ▴ 40
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2
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1.3k
views
help with KEGG or KEGGSOAP
KEGGSOAP KEGGSOAP
updated 18.3 years ago by ▴ 870 • written 18.3 years ago by ▴ 40
0
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0
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824
views
Inconsistent results returned from KEGG
KEGGSOAP KEGGSOAP
19.0 years ago michael watson IAH-C ★ 3.4k
0
votes
12
replies
2.5k
views
KEGGSOAP
KEGGSOAP KEGGSOAP
updated 19.0 years ago by ★ 7.4k • written 19.0 years ago by ▴ 30
0
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0
replies
1.1k
views
problem with get.genes.by.pathway
Biobase reposTools KEGGSOAP Biobase reposTools KEGGSOAP
19.4 years ago Kimpel, Mark W ▴ 890
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1
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1.4k
views
Bioconductor Install Problems
Rgraphviz KEGGSOAP Rgraphviz KEGGSOAP
updated 20.1 years ago by ★ 7.4k • written 20.1 years ago by ▴ 10
0
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0
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756
views
mark.pathway.by.objects return NULL
KEGGSOAP KEGGSOAP
20.2 years ago Yi-Xiong Sean Zhou ▴ 50
0
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0
replies
1.2k
views
KEGGSOAP - Error in xmlName(node[[1]]) : no applicable method for "xmlName"
KEGGSOAP KEGGSOAP
20.2 years ago michael watson IAH-C ★ 3.4k
0
votes
2
replies
1.0k
views
Problems installing KEGGSOAP
KEGGSOAP KEGGSOAP
20.2 years ago michael watson IAH-C ★ 3.4k
0
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2
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1.5k
views
pathway analysis package
RBGL KEGGSOAP RBGL KEGGSOAP
updated 20.2 years ago by 21k • written 20.2 years ago by ▴ 60
43 results • Page 1 of 1
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Comment: how many significant figures are there in DESeq2 output by ATpoint ★ 4.7k
If you want consistency then use a fixed software environment like Docker, wirh fixed code and thresholds that make sense. Rounding to near…
Comment: Compare TCGA-PAAD with GTEx gene expression by Jane • 0
why aren't there any answers?
Comment: Too many significant genes when integrating gtex and tcga by Jane • 0
I encountered the same issue: too many DEGs after limma analysis. It is sad that until today we can still see the paper published where GTE…
Comment: how many significant figures are there in DESeq2 output by Matthew McCormack ▴ 180
Thank you for your reply. It is good to know that cutoff of 0.05 means less than 0.05. My concerns are about consistency and reproducibili…
Comment: DiffBind edgeR normalization --- why are the normalization factors all equal to by ATpoint ★ 4.7k
No, normalization factors from edgeR rather than size factors from DESeq2 are not proportional, it's a different concept and implementation…
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A: Unbalanced experiment with multiple samples from each patient.
Unbalanced experiment with multiple samples from each patient.
Answer: Vertical line at A=0, nothing else, on MA plot
Answer: GSVA Error Code "Calling gsva(expr=., gset.idx.list=., method=., ...) is defunct
Answer: Group-specific condition effects with individuals nested: matrix is not full ra
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