Showing : clusterprofiler • reset
0
votes
4
replies
115
views
error running enricher from clusterprofiler
clusterProfiler cluster
2 days ago Yael • 0
0
votes
1
reply
114
views
Gene set enrichment analysis
clusterProfiler GeneSetEnrichment
updated 4 days ago by ★ 4.0k • written 5 days ago by • 0
2
votes
13
replies
476
views
Trying to use enrichGO
clusterProfiler GenomicDistributionsData KEGG
26 days ago • updated 23 days ago fernanda.backsouza ▴ 10
1
vote
3
replies
888
views
How to tell and visualize up/down regulation of pathways from clusterprofiler gsea output
clusterProfiler RNASeq
updated 23 days ago by ★ 1.2k • written 14 months ago by ▴ 10
1
vote
1
reply
131
views
Cannabis OrgDb
KEGGgraph org.Cs.eg.db clusterProfiler KEGG AnnotationHubSoftware
updated 24 days ago by 65k • written 24 days ago by ▴ 10
2
votes
2
replies
211
views
OrgDb for maize
clusterProfiler OrgDb biomaRt Zea_mays
updated 28 days ago by 65k • written 29 days ago by • 0
1
vote
2
replies
171
views
geneList error in clusterprofiler
clusterProfiler GeneSetEnrichment
4 weeks ago Ana • 0
0
votes
1
reply
196
views
compareCluster dotplot: how to modify the genesets order
DOSE enrichplot clusterProfiler
updated 4 weeks ago by ★ 4.0k • written 5 weeks ago by • 0
2
votes
2
replies
213
views
How many of my genes from my gene list are in each KEGG pathway?
Pathways clusterProfiler gseKEGG KEGG
5 weeks ago julia_mcdonough • 0
0
votes
1
reply
188
views
How can I create a GO plot with ggpubr and clusterProfiler libraries (begginer)
clusterProfiler ggpubr
updated 5 weeks ago by 65k • written 5 weeks ago by • 0
0
votes
0
replies
161
views
Why output of GSEA is not the same but inversed, when you have the same but inversed input data?
clusterProfiler gseKEGG
6 weeks ago andromeda • 0
2
votes
1
reply
230
views
Only positive enrichment score in GSEA
clusterProfiler annotation gseGO gsea OrgDb
updated 7 weeks ago by ★ 4.0k • written 8 weeks ago by ▴ 10
4
votes
4
replies
3.8k
views
Function simplify fails when argument ont is set to "ALL" in enrichGO function in package clusterProfiler
clusterProfiler GO GO enrichment genesetenrichment
updated 8 weeks ago by • 0 • written 6.4 years ago by ▴ 20
2
votes
2
replies
289
views
padj-based gradient scale from barplot (clusterProfiler results) does not work properly
enrichplot barplot clusterProfiler
8 weeks ago Eva ▴ 10
1
vote
7
replies
1.6k
views
enrichGOgradient color change
clusterProfiler
updated 8 weeks ago by ★ 4.0k • written 6 months ago by • 0
1
vote
3
replies
1.9k
views
enrichKEGG results for non-model organism
clusterProfiler enrichment KEGG
updated 3 months ago by • 0 • written 23 months ago by • 0
0
votes
3
replies
452
views
Unable to install clusterProfiler
clusterProfiler
updated 3 months ago by • 0 • written 3 months ago by • 0
0
votes
3
replies
1.5k
views
Not able to install clusterProfiler
clusterProfiler
updated 3 months ago by • 0 • written 10 months ago by • 0
1
vote
1
reply
210
views
Clsuter Profiler "counts"
enrich clusterProfiler
updated 3 months ago by 65k • written 3 months ago by • 0
2
votes
15
replies
730
views
Problems with enrichGO
clusterProfiler enrichGO
updated 3 months ago by 42k • written 3 months ago by • 0
0
votes
2
replies
353
views
Problem with buildGOmap from clusterProfiler
clusterProfiler
3 months ago mello-vieira • 0
3
votes
11
replies
5.0k
views
GO enrichment analysis on Solanum lycopersicum proteomics dataset (UniProt IDs)
clusterProfiler AnnotationHub GO uniprot
updated 3 months ago by ★ 4.0k • written 3.3 years ago by • 0
0
votes
1
reply
312
views
ClusterProfiler result question: Why are all many of my resulting p.adjust values the same???
clusterProfiler
updated 3 months ago by 65k • written 3 months ago by • 0
4
votes
2
replies
389
views
Enrichement with clusterProfiler and biomart
biomaRt clusterProfiler Zea_mays
updated 4 months ago by ★ 4.0k • written 4 months ago by • 0
0
votes
6
replies
8.7k
views
No gene can be mapped error with clusterprofiler
clusterprofiler r
updated 4 months ago by ★ 4.0k • written 7.3 years ago by • 0
0
votes
2
replies
2.2k
views
clusterProfiler - custom annotations
clusterProfiler
updated 4 months ago by ★ 4.0k • written 17 months ago by • 0
2
votes
6
replies
2.0k
views
clusterProfiler for KEGG enrichment (non-model species) Over-Representation Analysis
KEGG clusterProfiler
updated 4 months ago by ★ 4.0k • written 14 months ago by ▴ 10
0
votes
1
reply
1.5k
views
ClusterProfiler - enrichKEGG on specific pathways
kegg enrichkegg clusterprofiler
updated 5 months ago by • 0 • written 5.8 years ago by ▴ 40
0
votes
3
replies
879
views
How can we use the organism database created by makeorgPackageFromNCBI to KEGG and GO analysis using clusterprofiler package.
clusterProfiler OrganismDb
updated 5 months ago by ★ 4.0k • written 5 months ago by • 0
0
votes
9
replies
702
views
It's possible to use clusterProfiler without an annotationDBI package
clusterProfiler
5 months ago nromerov • 0
3
votes
6
replies
2.2k
views
Result from GSEA for non-model organism not as expected
clusterProfiler
updated 5 months ago by 65k • written 19 months ago by ▴ 10
2
votes
9
replies
1.2k
views
object HPOGENE is not exported by namespace HPO.db
clusterProfiler HPO.db
updated 6 months ago by ▴ 50 • written 6 months ago by ▴ 30
3
votes
4
replies
1.2k
views
Annotation hub and clusterProfiler errors
clusterProfiler Annotationhub
updated 6 months ago by ★ 4.0k • written 6 months ago by • 0
0
votes
3
replies
1.3k
views
gseaplot2 from enrichplot for gene set enrichment analysis comparing two datasets
enrichplot GSEA clusterProfiler
updated 6 months ago by • 0 • written 9 months ago by • 0
0
votes
2
replies
495
views
Differential Expression Cutoffs for n = 1
clusterProfiler DESeq2
7 months ago georgii.vdovin • 0
0
votes
0
replies
387
views
clusterProfiler code to GO enrichment analysis seems to be incomplete
clusterProfiler DifferentialExpression
7 months ago nromerov • 0
0
votes
2
replies
678
views
For R version 4.0.2 and Biconductor version 3.11, clusterProfiler is not working
Bioconductor clusterProfiler
updated 7 months ago by 65k • written 7 months ago by • 0
1
vote
2
replies
898
views
Cluster profiler emap plot - what are the annotations?
clusterProfiler emapplot
8 months ago fluentin44 • 0
0
votes
2
replies
1.2k
views
apply clusterProfiler::simplify on merge_result list
clusterProfiler
8 months ago Valéria • 0
3
votes
2
replies
1.1k
views
ERROR in EnrichKEGG(), 'species should be listed' in, download method do not change
KEGG DESeq2 biomaRt clusterProfiler org.Mm.eg.db
updated 9 months ago by ★ 4.0k • written 9 months ago by ▴ 10
2
votes
2
replies
4.0k
views
Bgratio column in clusterProfiler enrichGO results
clusterprofiler
updated 9 months ago by • 0 • written 7.9 years ago by ▴ 10
0
votes
0
replies
359
views
Downstream analysis of DEG for non-model organisms.
axolotl KEGG GOstats clusterProfiler
10 months ago georgii.vdovin • 0
2
votes
5
replies
3.2k
views
How to use EnrichGo of Cluster Profiler
EnrichGO clusterProfiler
written 3.3 years ago by • 0
0
votes
1
reply
859
views
How to Load a Molecular Signature Database into clusterProfiler gseGO?
gseGO GeneSet clusterProfiler GeneSetEnrichment
updated 10 months ago by 65k • written 10 months ago by • 0
0
votes
5
replies
1.1k
views
plot enrichment results
enrichplot clusterProfiler
updated 10 months ago by ▴ 730 • written 10 months ago by • 0
0
votes
2
replies
705
views
Question regarding FAQ
clusterProfiler
11 months ago kl-fr • 0
3
votes
3
replies
4.8k
views
Genelist input for ClusterProfiler
R ClusterProfiler Enrichment Pathway
updated 11 months ago by ★ 4.0k • written 4.1 years ago by • 0
0
votes
0
replies
865
views
fgsea/clusterProfiler Packages for nCounter data enrichment analysis
NanoStringDiff clusterProfiler fgsea
11 months ago pg45863 ▴ 10
2
votes
4
replies
1.6k
views
Change dotsize to be the same in multiple plots - enrichplot dotplot
enrichplot clusterProfiler
11 months ago Tyroone • 0
49 results • Page 1 of 1
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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?
Comment: DESeq2- Mysterious interaction suppresses DEGs by shaunpeterson • 0
The images I tried to attach didn't attach. Here is the PCA (MDS) of all the samples, with the Cortex outlier highlighed. ![enter image de…
Comment: STRINGdb : error with string_db$plot_network() by damian.szk ▴ 80
ok. Forcing non-secure protocol should not be needed anymore, due to changes in the underlying library. However, I will look at why "HTTP" …
Comment: STRINGdb : error with string_db$plot_network() by ninidea • 0
> Does the vignette produce the same error? No. Anyway, I finally solved the problem. I don't know why, but I removed: protocol='http' fr…
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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