Showing : ReactomePA • reset
1
vote
2
replies
1.3k
views
ReactomePA:enrichPathway error in universe parameter
enrichPathway ReactomePA
updated 12 months ago by ▴ 40 • written 3.6 years ago by ▴ 10
4
votes
4
replies
3.5k
views
Clarifications on p-values in enrichResult objects
clusterProfiler reactomepa dose
updated 13 months ago by • 0 • written 7.3 years ago by ▴ 660
0
votes
0
replies
457
views
ReactomePA list of pathway plots
ReactomePA
18 months ago curiousmind007 ▴ 10
1
vote
1
reply
519
views
Meaning of brown-coloured nodes in the graph produced by the ReactomePA viewPathway() function.
clusterProfiler ReactomePA
updated 19 months ago by ▴ 740 • written 19 months ago by ▴ 10
0
votes
1
reply
1.1k
views
How to download annotation package for oryza sativa Japonica and Oryza sativa indica for pathway analysis?
reactomePA package annotation
updated 23 months ago by 3.6k • written 23 months ago by ▴ 20
0
votes
0
replies
686
views
enrichPathway error when checking condition lengths used
DOSE ReactomePA
2.8 years ago Lluís Revilla Sancho ▴ 720
3
votes
4
replies
1.9k
views
Download of package ‘reactome.db’ failed (Ubuntu, not for Windows)
reactome.db ReactomePA
2.8 years ago florianjt • 0
0
votes
0
replies
480
views
Clusterprofiler - best practise for missing ids
ReactomePA clusterProfiler GeneSetEnrichment
3.0 years ago paun_bio • 0
0
votes
2
replies
1.0k
views
Hightlight genes/metabolites in Pathview and ReactomePA
pathview ReactomePA
updated 3.4 years ago by 64k • written 3.4 years ago by • 0
0
votes
9
replies
1.3k
views
ReactomePA error graph
r rnaseq bulk GO ReactomePA
3.5 years ago • updated 3.4 years ago camillab. ▴ 10
0
votes
0
replies
662
views
reactomePA error input file
r reactomePA enrichment
updated 3.5 years ago by 3.9k • written 3.5 years ago by ▴ 10
0
votes
0
replies
815
views
similarity coefficients used in emapplot {enrichplot} / gsePathway {ReactomePA} and simplify {clusterProfiler}
enrichplot ReactomePA clusterProfiler similarity coefficients emapplot
3.6 years ago jan.soderman • 0
0
votes
8
replies
2.2k
views
Adding Enrichresults for creating plot
ReactomePA clusterProfiler
3.6 years ago felix.thaler • 0
0
votes
1
reply
3.5k
views
How to modify label text size/line width in cnetplot (ReactomePA/clusterProfiler)
clusterProfiler ReactomePA
updated 3.7 years ago by ★ 1.2k • written 3.7 years ago by ▴ 10
0
votes
4
replies
932
views
How to list all "..." parameters inside R function
ReactomePA clusterProfiler
updated 3.8 years ago by 64k • written 3.8 years ago by • 0
0
votes
2
replies
1.8k
views
DO.db is missing after repeated installations-ReactomePA-ClusterProfiler-DOSE
software error reactomePA DOSE DO.db there is no package called ‘DO.db’
updated 4.0 years ago by 25k • written 4.0 years ago by • 0
0
votes
0
replies
672
views
ReactomePA only showing 1 result
ReactomePA
4.5 years ago ayang • 0
0
votes
1
reply
768
views
ReactomePA and genelist
ReactomePA
updated 4.6 years ago by • 0 • written 4.6 years ago by ▴ 10
0
votes
0
replies
701
views
viewPathway not showing a gene of interest
ReactomePA
4.8 years ago santos22903 • 0
2
votes
5
replies
3.0k
views
How to convert data frame obtained with enrichPathway back to an enrichPathway result after editing/subsetting?
ReactomePA
updated 5.0 years ago by ★ 1.2k • written 5.0 years ago by ▴ 30
1
vote
2
replies
1.6k
views
ReactomePA / Reactome: GSEA error message
reactomepa reactome gsea fgsea
5.5 years ago martin.busch • 0
0
votes
5
replies
1.7k
views
ReactomePA / Reactome: Crash when plotting
reactomepa reactomepa reactome bioconductor viewpathway reactome.db reactome
5.5 years ago martin.busch • 0
2
votes
4
replies
1.9k
views
ReactomePA / Reactome: Extraction of genes within a term
pathways reactomepa functional annotation
updated 5.5 years ago by ★ 1.2k • written 5.5 years ago by • 0
0
votes
2
replies
1.7k
views
p-values in Reactome and ReactomePA
reactomepa reactome
updated 5.7 years ago by ★ 1.2k • written 5.7 years ago by • 0
3
votes
5
replies
1.7k
views
ReactomePA - Pathway analysis for DE porcine genes
reactomepa clusterprofiler
5.7 years ago thomasjenner333 • 0
0
votes
2
replies
1.4k
views
Reference for edge and node properties suitable for enrichMap{DOSE}
DOSE ReactomePA enrichMap enrichPathway
updated 5.9 years ago by ★ 1.2k • written 5.9 years ago by • 0
0
votes
3
replies
1.7k
views
custom background list for ReactomePA
reactomepa chipseeker Guangchuang Yu
5.9 years ago andrew.gehrke • 0
3
votes
2
replies
4.2k
views
Pathway analysis using ReactomePA::enrichPathway(): doubts about minGSSize and maxGSSize arguments
reactomepa pathway analysis enrichment analysis clusterprofiler
updated 6.1 years ago by ★ 1.2k • written 6.1 years ago by ▴ 10
3
votes
4
replies
1.6k
views
Enrichment Analysis for Shot-gun proteomics data using the ReactomePA package: problem with identities loss
reactomepa reactome.db reactome proteomics uniprot accessions
updated 6.1 years ago by ▴ 150 • written 6.1 years ago by ▴ 10
3
votes
1
reply
1.1k
views
ReactomePA enrichMap function - a question regarding the connections between nodes
reactomepa
updated 6.4 years ago by ▴ 720 • written 6.4 years ago by • 0
0
votes
1
reply
1.2k
views
GSEA threshold question
GSEa r clusterprofiler reactomepa
6.5 years ago bhgyu ▴ 30
1
vote
8
replies
2.0k
views
ReactomePA gsePathway - a couple of questions regarding the input and output
reactomepa
6.7 years ago juls • 0
1
vote
1
reply
1.4k
views
ReactomePA viewPathway DE node and legend colour
DOSE ReactomePA
6.9 years ago Kajus Baidžajevas ▴ 10
5
votes
4
replies
1.6k
views
Reactome pathways in ReactomeDB/graphite
reactomepa reactome graphite
updated 6.9 years ago by ▴ 100 • written 6.9 years ago by ▴ 30
0
votes
1
reply
1.2k
views
Dependent library issue when loading ReactomePA
ReactomePA
updated 7.2 years ago by 64k • written 7.2 years ago by • 0
1
vote
1
reply
1.4k
views
how to link ReactomePA with DESeq2
ReactomePA GO
updated 7.2 years ago by ★ 1.2k • written 7.2 years ago by ▴ 10
0
votes
1
reply
1.6k
views
ReactomePA - Change colors in barplot
reactomepa
updated 7.3 years ago by ★ 1.2k • written 7.3 years ago by ▴ 860
0
votes
14
replies
3.1k
views
Error in ReactomePA
r reactomepa
updated 7.4 years ago by ★ 1.2k • written 7.4 years ago by ▴ 20
1
vote
3
replies
2.7k
views
Reactome pathway analysis using ReactomePA
reactomepa R bioconductor ReactomePA
updated 8.1 years ago by ▴ 10 • written 8.2 years ago by ▴ 10
2
votes
4
replies
2.0k
views
ReactomePA : error with gsePathway
ReactomePA gsePathway
updated 8.7 years ago by ★ 1.2k • written 8.7 years ago by ▴ 140
40 results • Page 1 of 1
Recent ...
Replies
Comment: DESeq2 - groups with biological replicates from the same patient by Oscar • 0
Thanks James for your helpful response. This particular experimental set up is very common in iPSC studies, where multiple differentiations…
Comment: DESeq2 test for synergistic vs additive effects by Jay • 0
Why is TrtAB - TrtA - TrtB + Control "not really a thing"? i came to this forum answer when attempting to use EdgeR to answer a similar que…
Comment: NCBI protein conversion to CDNA and NCBI gene (in R) by Gordon Smyth 48k
Continuation of https://support.bioconductor.org/p/9155428/
Comment: Why is DMRcate not available for Bioconductor version 3.18? by Tim Peters ▴ 150
Thanks Daniel, Gordon and Lori for flagging this. DSS is only needed for the vignette so I'll remove that section, plus the dependency, som…
Comment: NCBI protein to NCBI cDNA (Ensembl conversions would be great as well) in R by R_Page • 0
Thank you, this works well. As for CDNA, I figured out what I need to find, and have made a new post regarding it.
Votes
Answer: Confused about the CPM and TMM normalization in edgeR
Answer: Differential gene expression analysis
Comment: Why is DMRcate not available for Bioconductor version 3.18?
Comment: Why is DMRcate not available for Bioconductor version 3.18?
Comment: Why is DMRcate not available for Bioconductor version 3.18?
Awards • All
Popular Question to Poonam • 0
Scholar to James W. MacDonald 64k
Scholar to Assa Yeroslaviz ★ 1.5k
Popular Question to Gordon Smyth 48k
Popular Question to Endre Sebestyén ▴ 70
Locations • All
Egypt, 8 minutes ago
United Kingdom, 22 minutes ago
WEHI, Melbourne, Australia, 58 minutes ago
United States, 1 hour ago
United Kingdom, 1 hour ago
Traffic: 512 users visited in the last hour
Content Search
Users
Tags
Badges
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6