Showing : KEGGREST • reset
3
votes
2
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229
views
Cannabis and KEGGgraph
KEGGREST GenomicDistributionsData KEGGgraph KEGG
updated 26 days ago by ★ 4.0k • written 28 days ago by ▴ 10
0
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0
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374
views
Include or exclude N/A genes (those without any KEGG annotation) when running Wilcox test?
KEGGREST KEGG RNASeq
6 months ago mch • 0
1
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1
reply
1.3k
views
Error with Pathview: Bad Request (HTTP 400)
KEGGREST pathview R
updated 13 months ago by ★ 4.0k • written 13 months ago by • 0
0
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2
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1.6k
views
keggList curl::curl_fetch_memory(url, handle = handle) ERROR
URL KEGGREST
15 months ago jonathanlecoy • 0
3
votes
13
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2.6k
views
pathview says my nonmodel species is unknown: "species invalid"
KEGGREST KEGG gage pathview
21 months ago • updated 15 months ago nute11a ▴ 10
0
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3
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968
views
ROntoTools: Set returned by keggPathwayGraphs is missing 121 pathways reported by keggPathwayNames
KEGGREST ROntoTools KEGG KEGGgraph
21 months ago abf ▴ 30
0
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3
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2.0k
views
Problem in kegga() and others getting data from KEGG after switch from http to https
limma KEGGREST EGSEA
updated 23 months ago by 3.9k • written 23 months ago by ★ 2.0k
0
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0
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1.0k
views
How to compute the "completeness" of a KEGG module using a set of KEGG orthologs? (Module Completion Ratio)
KEGG KEGGREST keggorthology Metagenomics
3.2 years ago jol.espinoz ▴ 40
2
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1
reply
986
views
GSEA generate genesets
pathway KEGGREST GSEA
updated 3.2 years ago by ★ 3.9k • written 3.2 years ago by • 0
0
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1
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1.7k
views
KEGGREST keggGet fails to retrieve modules, but not pathways
keggrest software error pathways modules kegg
updated 4.1 years ago by 25k • written 4.1 years ago by • 0
0
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2
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913
views
how can I find a pathway
kegg KEGGREST
4.5 years ago Bioinformatics ▴ 30
1
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8
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2.0k
views
KEGGREST mapping between genes and pathways
keggrest mapping genes to pathways
updated 5.2 years ago by 50k • written 5.3 years ago by ▴ 10
3
votes
4
replies
8.5k
views
How i can get a list of KEGG pathways and its list of genes?
keggrest
updated 5.9 years ago by 25k • written 5.9 years ago by ▴ 10
0
votes
1
reply
836
views
KEGGSOAP:: KEGGxmlns object not found
keggsoap keggrest
6.0 years ago doctor.dee005 • 0
1
vote
9
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2.9k
views
Gene-Metabolite and Metabolite-Pathway network from KEGG with KEGGREST
KEGG keggrest
updated 6.1 years ago by ▴ 10 • written 6.1 years ago by ▴ 20
1
vote
4
replies
2.1k
views
How do I convert kegg info on drug to a format allowing me to calculate similarities?
keggrest chemminer fmcsr graph
written 6.2 years ago by • 0
2
votes
1
reply
955
views
How can I remove the ellipsis and get the complete sequence and results?
keggrest biostrings
updated 6.3 years ago by 3.9k • written 6.3 years ago by ▴ 10
2
votes
1
reply
1.5k
views
Possible bug: outdated result from listDatabases()
KEGGREST bug
updated 6.8 years ago by ▴ 50 • written 6.8 years ago by • 0
0
votes
2
replies
2.3k
views
Accessing KEGG (errors w/ KEGGREST)
KEGG keggrest
updated 7.3 years ago by 50k • written 7.3 years ago by • 0
0
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2
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1.3k
views
Retrieve KEGG from protein GI
R KEGG KEGGREST
7.4 years ago felipelira3 • 0
0
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2
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3.1k
views
Get the reactions for a organism using KEGGREST
keggrest
8.0 years ago kjboteroo • 0
0
votes
11
replies
4.4k
views
Examples from keggList in KEGGREST don't all work
software error keggrest
8.2 years ago Bryan Hanson • 0
0
votes
1
reply
1.6k
views
Problem in KEGGREST package function keggConv
KEGGREST keggConv
updated 8.3 years ago by ★ 8.2k • written 8.3 years ago by ▴ 120
2
votes
15
replies
3.9k
views
Timeout error in kegga() using edgeR
edger kegga keggrest
8.4 years ago Likai Mao ▴ 40
1
vote
1
reply
1.4k
views
KEGGREST fail to fetch human genes link to pathway
keggrest clusterProfiler
updated 8.7 years ago by ★ 8.2k • written 8.7 years ago by ★ 1.2k
0
votes
2
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7.4k
views
Using Keggrest to convert ncbi gene IDs to kegg orthology and pathway
keggrest kegg keggorthology
updated 9.5 years ago by 65k • written 9.5 years ago by ▴ 100
0
votes
4
replies
3.0k
views
Error: could not find function "plotPCA"
GO affycoretools KEGGREST GO affycoretools KEGGREST
updated 10.0 years ago by 42k • written 10.0 years ago by ▴ 50
0
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1
reply
1.5k
views
limma2annaffy
GO GUI annaffy oligo oligoClasses KEGGREST GO GUI annaffy oligo oligoClasses KEGGREST
updated 10.4 years ago by 65k • written 10.4 years ago by ★ 13k
0
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1
reply
1.5k
views
Error message using arrayweights
GO Cancer mouse4302 KEGGREST GO Cancer mouse4302 KEGGREST
updated 10.4 years ago by ▴ 1000 • written 10.4 years ago by ▴ 80
0
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0
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1.7k
views
Pathview question
KEGGREST pathview KEGGREST pathview
10.6 years ago Luo Weijun ★ 1.6k
0
votes
1
reply
1.8k
views
trouble reading DNA stringset from keggGet function
PROcess KEGGREST PROcess KEGGREST
updated 10.7 years ago by 65k • written 10.7 years ago by ★ 13k
0
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7
replies
4.8k
views
Simple pathway enrichment analysis for gene lists
Microarray Category gage KEGGREST ROntoTools Microarray Category gage KEGGREST ROntoTools
updated 10.7 years ago by ▴ 470 • written 10.7 years ago by ▴ 660
0
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0
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1.7k
views
SPIA algorithm organisms not included already in the SPIA package
Organism SPIA goseq KEGGREST Organism SPIA goseq KEGGREST
11.2 years ago Tarca, Adi ▴ 570
0
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0
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1.1k
views
KEGGREST package is available in devel
KEGGSOAP KEGGREST KEGGSOAP KEGGREST
11.3 years ago Dan Tenenbaum ★ 8.2k
34 results • Page 1 of 1
Recent ...
Replies
Answer: Numerical differences in DESeq2 output depending on different design matrix cons by Michael Love 42k
Yes there can be small numerical differences in the estimated quantities because of how the algorithms decide to stop iterating.
Answer: DESeq2- Mysterious interaction suppresses DEGs by Michael Love 42k
Removing samples from one group nevertheless changes the variance estimation (dispersion) for all comparisons. So you could have pushed one…
Comment: Numerical differences in DESeq2 output depending on different design matrix cons by JKim • 0
The 1st model has an interaction term, but the 2nd model doesn't have the interaction term. That makes the difference.
Comment: Ensembl plants at annotationHub? by Daniele • 0
Hi, I'm using Ensembl Plants release 59 with the IWGSC RefSeq v1.1 gene annotation. Thanks a lot for replying so quickly!
Comment: Numerical differences in DESeq2 output depending on different design matrix cons by swbarnes2 ★ 1.4k
If you restrict yourself to, say, genes with a baseMean > 50, are the numerical differences between the two designs significant?
Votes
Answer: Error while installing BiocManager::install("org.Vdahliae.eg.db")
Comment: How can I create a eigencorplot of pca created from deseq2 object with PCAtools
Answer: Importing a GraphNEL into Cytoscape with RCy3 with error: "Error in cyrestPUT(pa
Answer: Importing a GraphNEL into Cytoscape with RCy3 with error: "Error in cyrestPUT(pa
Rsubread counting peaks ATACseq
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