Showing : reactomePA • reset
0
votes
0
replies
68
views
ReactomePA list of pathway plots
ReactomePA
10 weeks ago curiousmind007 • 0
1
vote
1
reply
135
views
Meaning of brown-coloured nodes in the graph produced by the ReactomePA viewPathway() function.
clusterProfiler ReactomePA
updated 3 months ago by ▴ 390 • written 3 months ago by ▴ 10
0
votes
1
reply
359
views
How to download annotation package for oryza sativa Japonica and Oryza sativa indica for pathway analysis?
reactomePA package annotation
updated 7 months ago by 3.2k • written 7 months ago by ▴ 20
0
votes
0
replies
313
views
enrichPathway error when checking condition lengths used
DOSE ReactomePA
17 months ago Lluís Revilla Sancho ▴ 690
3
votes
4
replies
633
views
Download of package ‘reactome.db’ failed (Ubuntu, not for Windows)
reactome.db ReactomePA
18 months ago florianjt • 0
0
votes
0
replies
272
views
Clusterprofiler - best practise for missing ids
ReactomePA clusterProfiler GeneSetEnrichment
21 months ago paun_bio • 0
0
votes
2
replies
455
views
Hightlight genes/metabolites in Pathview and ReactomePA
pathview ReactomePA
updated 2.1 years ago by 60k • written 2.1 years ago by • 0
0
votes
9
replies
672
views
ReactomePA error graph
r rnaseq bulk GO ReactomePA
2.1 years ago camillab. ▴ 10
0
votes
0
replies
380
views
reactomePA error input file
r reactomePA enrichment
updated 2.2 years ago by 3.6k • written 2.2 years ago by ▴ 10
0
votes
0
replies
387
views
similarity coefficients used in emapplot {enrichplot} / gsePathway {ReactomePA} and simplify {clusterProfiler}
enrichplot ReactomePA clusterProfiler similarity coefficients emapplot
2.3 years ago jan.soderman • 0
1
vote
1
reply
526
views
ReactomePA:enrichPathway error in universe parameter
enrichPathway ReactomePA
updated 2.3 years ago by 3.6k • written 2.3 years ago by • 0
0
votes
8
replies
1.1k
views
Adding Enrichresults for creating plot
ReactomePA clusterProfiler
2.3 years ago felix.thaler • 0
0
votes
1
reply
1.9k
views
How to modify label text size/line width in cnetplot (ReactomePA/clusterProfiler)
clusterProfiler ReactomePA
updated 2.4 years ago by ★ 1.2k • written 2.4 years ago by ▴ 10
0
votes
4
replies
470
views
How to list all "..." parameters inside R function
ReactomePA clusterProfiler
updated 2.5 years ago by 60k • written 2.5 years ago by • 0
0
votes
2
replies
1.1k
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 2.7 years ago by 25k • written 2.7 years ago by • 0
0
votes
0
replies
454
views
ReactomePA only showing 1 result
ReactomePA
3.2 years ago ayang • 0
0
votes
1
reply
437
views
ReactomePA and genelist
ReactomePA
updated 3.3 years ago by • 0 • written 3.3 years ago by ▴ 10
0
votes
0
replies
433
views
viewPathway not showing a gene of interest
ReactomePA
3.5 years ago santos22903 • 0
2
votes
5
replies
1.9k
views
How to convert data frame obtained with enrichPathway back to an enrichPathway result after editing/subsetting?
ReactomePA
updated 3.7 years ago by ★ 1.2k • written 3.7 years ago by ▴ 20
1
vote
2
replies
1.1k
views
ReactomePA / Reactome: GSEA error message
reactomepa reactome gsea fgsea
4.2 years ago martin.busch • 0
0
votes
5
replies
1.1k
views
ReactomePA / Reactome: Crash when plotting
reactomepa reactomepa reactome bioconductor viewpathway reactome.db reactome
4.2 years ago martin.busch • 0
2
votes
4
replies
1.1k
views
ReactomePA / Reactome: Extraction of genes within a term
pathways reactomepa functional annotation
updated 4.2 years ago by ★ 1.2k • written 4.2 years ago by • 0
0
votes
2
replies
1.1k
views
p-values in Reactome and ReactomePA
reactomepa reactome
updated 4.4 years ago by ★ 1.2k • written 4.4 years ago by • 0
3
votes
5
replies
1.1k
views
ReactomePA - Pathway analysis for DE porcine genes
reactomepa clusterprofiler
4.4 years ago thomasjenner333 • 0
0
votes
2
replies
938
views
Reference for edge and node properties suitable for enrichMap{DOSE}
DOSE ReactomePA enrichMap enrichPathway
updated 4.5 years ago by ★ 1.2k • written 4.5 years ago by • 0
0
votes
3
replies
1.1k
views
custom background list for ReactomePA
reactomepa chipseeker Guangchuang Yu
4.6 years ago andrew.gehrke • 0
3
votes
2
replies
2.6k
views
Pathway analysis using ReactomePA::enrichPathway(): doubts about minGSSize and maxGSSize arguments
reactomepa pathway analysis enrichment analysis clusterprofiler
updated 4.8 years ago by ★ 1.2k • written 4.8 years ago by ▴ 10
3
votes
4
replies
1.1k
views
Enrichment Analysis for Shot-gun proteomics data using the ReactomePA package: problem with identities loss
reactomepa reactome.db reactome proteomics uniprot accessions
updated 4.8 years ago by ▴ 150 • written 4.8 years ago by ▴ 10
3
votes
1
reply
732
views
ReactomePA enrichMap function - a question regarding the connections between nodes
reactomepa
updated 5.1 years ago by ▴ 690 • written 5.1 years ago by • 0
0
votes
1
reply
845
views
GSEA threshold question
GSEa r clusterprofiler reactomepa
5.2 years ago bhgyu ▴ 30
1
vote
8
replies
1.3k
views
ReactomePA gsePathway - a couple of questions regarding the input and output
reactomepa
5.4 years ago juls • 0
1
vote
1
reply
1.1k
views
ReactomePA viewPathway DE node and legend colour
DOSE ReactomePA
5.6 years ago Kajus Baidžajevas ▴ 10
5
votes
4
replies
1.1k
views
Reactome pathways in ReactomeDB/graphite
reactomepa reactome graphite
updated 5.6 years ago by ▴ 100 • written 5.6 years ago by ▴ 30
0
votes
1
reply
964
views
Dependent library issue when loading ReactomePA
ReactomePA
updated 5.9 years ago by 60k • written 5.9 years ago by • 0
1
vote
1
reply
1.1k
views
how to link ReactomePA with DESeq2
ReactomePA GO
updated 5.9 years ago by ★ 1.2k • written 5.9 years ago by ▴ 10
4
votes
3
replies
1.6k
views
Clarifications on p-values in enrichResult objects
clusterProfiler reactomepa dose
updated 6.0 years ago by ★ 1.2k • written 6.0 years ago by ▴ 620
0
votes
1
reply
1.1k
views
ReactomePA - Change colors in barplot
reactomepa
updated 6.0 years ago by ★ 1.2k • written 6.0 years ago by ▴ 860
0
votes
14
replies
2.2k
views
Error in ReactomePA
r reactomepa
updated 6.1 years ago by ★ 1.2k • written 6.1 years ago by ▴ 20
1
vote
3
replies
1.9k
views
Reactome pathway analysis using ReactomePA
reactomepa R bioconductor ReactomePA
updated 6.8 years ago by ▴ 10 • written 6.8 years ago by ▴ 10
2
votes
4
replies
1.6k
views
ReactomePA : error with gsePathway
ReactomePA gsePathway
updated 7.4 years ago by ★ 1.2k • written 7.4 years ago by ▴ 140
40 results • Page 1 of 1
Recent ...
Replies
Comment: Design and contrast matrices for analyzing the effect of two factors of interest by Gordon Smyth 46k
I understand that your mock dataset has expression data for just one protein instead of 8000, but is the phenoData complete? Does your real…
Comment: error running UniProt.ws by James W. MacDonald 60k
Or maybe it is a quick fix! Nicely done Marcel!
Answer: Error with TCGA package - TCGAbiolinks by Tiago C. Silva ▴ 220
It is working with the github version. Could you update please? BiocManager::install("BioinformaticsFMRP/TCGAbiolinksGUI.data") …
Comment: Error with TCGA package - TCGAbiolinks by Marcel Ramos 570
You can try the Genomic Data Commons Data Portal at [https://portal.gdc.cancer.gov/][1] or the `GenomicDataCommons` R/Bioconductor packag…
Answer: error running UniProt.ws by Marcel Ramos 570
I've updated the package to handle these requests on both Bioc devel and release 3.15. Let me know if you have any issues. Best, M…
Votes
A: Importance of Order in Design Formula
remove microarray batch effects using Limma
On empirical Bayes of edgeR
Answer: CQN to DESeq2
Comment: package 'BiocInstaller' is not available (for R version 3.4.4)
Awards • All
Centurion to Marcel Ramos 570
Scholar to Gordon Smyth 46k
Popular Question to sunnykevin97 • 0
Popular Question to Alejandro Reyes ★ 1.8k
Popular Question to Leonardo Collado Torres ▴ 1000
Locations • All
India, 12 minutes ago
WEHI, Melbourne, Australia, 33 minutes ago
Malaysia, 44 minutes ago
The city by the bay, 50 minutes ago
United Kingdom, 1 hour ago
Traffic: 182 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