Showing : KEGGREST • reset
3
votes
2
replies
277
views
Cannabis and KEGGgraph
KEGGREST GenomicDistributionsData KEGGgraph KEGG
updated 7 weeks ago by ★ 4.0k • written 8 weeks ago by ▴ 10
0
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0
replies
397
views
Include or exclude N/A genes (those without any KEGG annotation) when running Wilcox test?
KEGGREST KEGG RNASeq
7 months ago mch • 0
1
vote
1
reply
1.4k
views
Error with Pathview: Bad Request (HTTP 400)
KEGGREST pathview R
updated 14 months ago by ★ 4.0k • written 14 months ago by ▴ 10
0
votes
2
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1.6k
views
keggList curl::curl_fetch_memory(url, handle = handle) ERROR
URL KEGGREST
16 months ago • updated 15 months ago jonathanlecoy • 0
3
votes
13
replies
2.7k
views
pathview says my nonmodel species is unknown: "species invalid"
KEGGREST KEGG gage pathview
22 months ago • updated 16 months ago nute11a ▴ 10
0
votes
3
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994
views
ROntoTools: Set returned by keggPathwayGraphs is missing 121 pathways reported by keggPathwayNames
KEGGREST ROntoTools KEGG KEGGgraph
22 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 24 months ago by 3.9k • written 24 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
1.0k
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
reply
1.8k
views
KEGGREST keggGet fails to retrieve modules, but not pathways
keggrest software error pathways modules kegg
updated 4.2 years ago by 25k • written 4.2 years ago by • 0
0
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2
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935
views
how can I find a pathway
kegg KEGGREST
4.6 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 5.3 years ago by 51k • written 5.3 years ago by ▴ 10
3
votes
4
replies
8.8k
views
How i can get a list of KEGG pathways and its list of genes?
keggrest
updated 6.0 years ago by 25k • written 6.0 years ago by ▴ 10
0
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1
reply
850
views
KEGGSOAP:: KEGGxmlns object not found
keggsoap keggrest
6.1 years ago doctor.dee005 • 0
1
vote
9
replies
3.0k
views
Gene-Metabolite and Metabolite-Pathway network from KEGG with KEGGREST
KEGG keggrest
updated 6.2 years ago by ▴ 10 • written 6.2 years ago by ▴ 20
1
vote
4
replies
2.2k
views
How do I convert kegg info on drug to a format allowing me to calculate similarities?
keggrest chemminer fmcsr graph
written 6.3 years ago by • 0
2
votes
1
reply
974
views
How can I remove the ellipsis and get the complete sequence and results?
keggrest biostrings
updated 6.4 years ago by 3.9k • written 6.4 years ago by ▴ 10
2
votes
1
reply
1.5k
views
Possible bug: outdated result from listDatabases()
KEGGREST bug
updated 6.9 years ago by ▴ 50 • written 6.9 years ago by • 0
0
votes
2
replies
2.4k
views
Accessing KEGG (errors w/ KEGGREST)
KEGG keggrest
updated 7.4 years ago by 51k • written 7.4 years ago by • 0
0
votes
2
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1.3k
views
Retrieve KEGG from protein GI
R KEGG KEGGREST
7.5 years ago felipelira3 • 0
0
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2
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3.2k
views
Get the reactions for a organism using KEGGREST
keggrest
8.1 years ago kjboteroo • 0
0
votes
11
replies
4.5k
views
Examples from keggList in KEGGREST don't all work
software error keggrest
8.3 years ago Bryan Hanson • 0
0
votes
1
reply
1.7k
views
Problem in KEGGREST package function keggConv
KEGGREST keggConv
updated 8.4 years ago by ★ 8.2k • written 8.4 years ago by ▴ 120
2
votes
15
replies
4.0k
views
Timeout error in kegga() using edgeR
edger kegga keggrest
8.5 years ago • updated 8.4 years ago Likai Mao ▴ 40
1
vote
1
reply
1.5k
views
KEGGREST fail to fetch human genes link to pathway
keggrest clusterProfiler
updated 8.8 years ago by ★ 8.2k • written 8.8 years ago by ★ 1.2k
0
votes
2
replies
7.5k
views
Using Keggrest to convert ncbi gene IDs to kegg orthology and pathway
keggrest kegg keggorthology
updated 9.6 years ago by 66k • written 9.6 years ago by ▴ 100
0
votes
4
replies
3.0k
views
Error: could not find function "plotPCA"
GO affycoretools KEGGREST GO affycoretools KEGGREST
updated 10.1 years ago by 42k • written 10.1 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 10.5 years ago by 66k • written 10.5 years ago by ★ 13k
0
votes
1
reply
1.5k
views
Error message using arrayweights
GO Cancer mouse4302 KEGGREST GO Cancer mouse4302 KEGGREST
updated 10.5 years ago by ▴ 1000 • written 10.5 years ago by ▴ 80
0
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0
replies
1.7k
views
Pathview question
KEGGREST pathview KEGGREST pathview
10.7 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 10.8 years ago by 66k • written 10.8 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 10.8 years ago by ▴ 470 • written 10.8 years ago by ▴ 660
0
votes
0
replies
1.7k
views
SPIA algorithm organisms not included already in the SPIA package
Organism SPIA goseq KEGGREST Organism SPIA goseq KEGGREST
11.3 years ago Tarca, Adi ▴ 570
0
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0
replies
1.1k
views
KEGGREST package is available in devel
KEGGSOAP KEGGREST KEGGSOAP KEGGREST
11.4 years ago Dan Tenenbaum ★ 8.2k
34 results • Page 1 of 1
Recent ...
Replies
Answer: Trouble reading samplesheet in with diffbind to create dba by Anthony • 0
I was struggling with this today too. For me it happened because my peak files were not in the correct format. The "10 elements" refers to …
Comment: gds in GEOmetadb 2023-06-26 version is empty by Frederico Moraes Ferreira ▴ 100
Try axel -n 20 https://gbnci.cancer.gov/geo/GEOmetadb.sqlite.gz
Comment: Most enriched pathway is not expressed when modifying universe parameter by James W. MacDonald 66k
The default for `enrichGO` is to subset to those with a p-value<0.05. You don't adjust that default argument, so you shouldn't have any GO …
Answer: In a 3 group DEG analysis with three batches, can I use 1 group in all three bat by Michael Love 42k
You can compare A and C thanks to the sharing of samples from B across 1, 2 and 3.
Comment: Most enriched pathway is not expressed when modifying universe parameter by adripel • 0
In the enrichGO results we have significant and non-significant enriched terms that are displayed. So why would an enriched term (significa…
Votes
Answer: How to do DESeq2 on Kallisto Data
Comment: Most enriched pathway is not expressed when modifying universe parameter
Time-course, comparison of two groups
Answer: Behaviour of featureCounts when quantifying multi-mapping reads
Answer: GESA with certain gene list returns no result with human genom, but many result
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