Showing : ClusterProfiler • reset
2
votes
2
replies
353
views
clusterProfiler enrichGO on only T-cell related GO terms
clusterProfiler
updated 16 days ago by ★ 1.2k • written 22 days ago by • 0
7
votes
9
replies
1.1k
views
clusterProfiler: BgRatio N value does not match the size of the gene universe that has GO annotations.
GO clusterProfiler enr
updated 8 weeks ago by ★ 4.1k • written 9 weeks ago by • 0
0
votes
5
replies
598
views
ı cant install clusterprofiler on my Ubuntu 20.04.6 LTS
Bioconductor clusterProfiler
updated 7 weeks ago by ▴ 760 • written 9 weeks ago by • 0
1
vote
2
replies
833
views
How to use compareCluster in ClusterProfiler?
RNASeqData GSEA clusterProfiler
written 10 weeks ago by • 0
0
votes
1
reply
435
views
question about gseGO() in clusterprofiler package
clusterProfiler
updated 10 weeks ago by ★ 4.1k • written 10 weeks ago by • 0
1
vote
5
replies
913
views
Heatmap from the output of GSEA clusterProfiler?
clusterProfiler heatmaps
written 12 weeks ago by • 0
2
votes
4
replies
754
views
# Invalid keytype: GOALL. Please use the keytypes method to see a listing of valid arguments.
clusterProfiler makeOrgPackage gseGO
updated 11 weeks ago by 67k • written 12 weeks ago by • 0
1
vote
2
replies
353
views
Question on number of genes used in GO analysis
GO clusterProfiler
3 months ago Danté • 0
1
vote
1
reply
439
views
Differences between core_enrichment from gsePathway and viewPathway
FunctionalAnalysis clusterProfiler viewPathway gsePathway
updated 3 months ago by ★ 4.1k • written 3 months ago by • 0
3
votes
1
reply
831
views
Difference between enrichGO results and Enrichr website results
Pathways GO.db clusterProfiler
updated 4 months ago by ★ 4.1k • written 4 months ago by ▴ 10
1
vote
2
replies
644
views
GESA with certain gene list returns no result with human genom, but many result with mouse genom.
clusterProfiler
5 months ago sawa • 0
1
vote
9
replies
1.3k
views
Most enriched pathway is not expressed when modifying universe parameter
DESeq2 clusterProfiler Pathways RNASeq org.Mm.eg.db
updated 5 months ago by 67k • written 5 months ago by ▴ 10
0
votes
1
reply
380
views
How can I get gseGO to return all GO terms tested?
clusterProfiler clusterp
updated 5 months ago by 67k • written 5 months ago by • 0
8
votes
6
replies
5.8k
views
Using the plotting functions of clusterProfiler / enrichplot with enrichment results from other programs
clusterProfiler enrichplot
updated 5 months ago by ▴ 30 • written 5.5 years ago by ▴ 160
0
votes
4
replies
569
views
error running enricher from clusterprofiler
clusterProfiler cluster
6 months ago Yael • 0
0
votes
1
reply
660
views
Gene set enrichment analysis
clusterProfiler GeneSetEnrichment
updated 6 months ago by ★ 4.1k • written 6 months ago by • 0
1
vote
1
reply
354
views
Cannabis OrgDb
KEGGgraph org.Cs.eg.db clusterProfiler KEGG AnnotationHubSoftware
updated 6 months ago by 67k • written 6 months ago by ▴ 30
5
votes
13
replies
1.9k
views
Trying to use enrichGO
clusterProfiler GenomicDistributionsData KEGG
6 months ago fernanda.backsouza ▴ 30
2
votes
2
replies
718
views
OrgDb for maize
clusterProfiler OrgDb biomaRt Zea_mays
updated 7 months ago by 67k • written 7 months ago by • 0
1
vote
2
replies
956
views
geneList error in clusterprofiler
clusterProfiler GeneSetEnrichment
7 months ago Ana • 0
2
votes
3
replies
764
views
How many of my genes from my gene list are in each KEGG pathway?
Pathways clusterProfiler gseKEGG KEGG
updated 3 days ago by • 0 • written 7 months ago by • 0
0
votes
1
reply
1.1k
views
compareCluster dotplot: how to modify the genesets order
DOSE enrichplot clusterProfiler
updated 7 months ago by ★ 4.1k • written 7 months ago by • 0
0
votes
1
reply
372
views
How can I create a GO plot with ggpubr and clusterProfiler libraries (begginer)
clusterProfiler ggpubr
updated 7 months ago by 67k • written 7 months ago by • 0
0
votes
0
replies
396
views
Why output of GSEA is not the same but inversed, when you have the same but inversed input data?
clusterProfiler gseKEGG
7 months ago andromeda • 0
2
votes
2
replies
720
views
Only positive enrichment score in GSEA
clusterProfiler annotation gseGO gsea OrgDb
written 7 months ago by ▴ 10
4
votes
4
replies
4.3k
views
Function simplify fails when argument ont is set to "ALL" in enrichGO function in package clusterProfiler
clusterProfiler GO GO enrichment genesetenrichment
updated 7 months ago by • 0 • written 6.9 years ago by ▴ 20
2
votes
2
replies
804
views
padj-based gradient scale from barplot (clusterProfiler results) does not work properly
enrichplot barplot clusterProfiler
8 months ago Eva ▴ 10
1
vote
8
replies
4.0k
views
enrichGOgradient color change
clusterProfiler
updated 5 months ago by • 0 • written 12 months ago by • 0
1
vote
1
reply
393
views
Clsuter Profiler "counts"
enrich clusterProfiler
updated 9 months ago by 67k • written 9 months ago by • 0
2
votes
15
replies
1.3k
views
Problems with enrichGO
clusterProfiler enrichGO
updated 9 months ago by 42k • written 9 months ago by • 0
0
votes
3
replies
936
views
Unable to install clusterProfiler
clusterProfiler
updated 9 months ago by • 0 • written 9 months ago by • 0
0
votes
2
replies
770
views
Problem with buildGOmap from clusterProfiler
clusterProfiler
9 months ago mello-vieira • 0
0
votes
1
reply
714
views
ClusterProfiler result question: Why are all many of my resulting p.adjust values the same???
clusterProfiler
updated 9 months ago by 67k • written 9 months ago by • 0
4
votes
2
replies
766
views
Enrichement with clusterProfiler and biomart
biomaRt clusterProfiler Zea_mays
updated 10 months ago by ★ 4.1k • written 10 months ago by • 0
0
votes
3
replies
1.6k
views
How can we use the organism database created by makeorgPackageFromNCBI to KEGG and GO analysis using clusterprofiler package.
clusterProfiler OrganismDb
updated 11 months ago by ★ 4.1k • written 11 months ago by • 0
3
votes
6
replies
3.0k
views
Result from GSEA for non-model organism not as expected
clusterProfiler
updated 11 months ago by 67k • written 2.1 years ago by ▴ 10
0
votes
9
replies
1.2k
views
It's possible to use clusterProfiler without an annotationDBI package
clusterProfiler
11 months ago nromerov • 0
2
votes
9
replies
2.9k
views
object HPOGENE is not exported by namespace HPO.db
clusterProfiler HPO.db
updated 12 months ago by ▴ 50 • written 12 months ago by ▴ 30
3
votes
4
replies
1.8k
views
Annotation hub and clusterProfiler errors
clusterProfiler Annotationhub
updated 12 months ago by ★ 4.1k • written 12 months ago by • 0
0
votes
2
replies
763
views
Differential Expression Cutoffs for n = 1
clusterProfiler DESeq2
13 months ago georgii.vdovin • 0
0
votes
0
replies
589
views
clusterProfiler code to GO enrichment analysis seems to be incomplete
clusterProfiler DifferentialExpression
13 months ago nromerov • 0
0
votes
2
replies
1.3k
views
For R version 4.0.2 and Biconductor version 3.11, clusterProfiler is not working
Bioconductor clusterProfiler
updated 13 months ago by 67k • written 13 months ago by • 0
1
vote
2
replies
1.4k
views
Cluster profiler emap plot - what are the annotations?
clusterProfiler emapplot
14 months ago fluentin44 • 0
0
votes
2
replies
2.1k
views
apply clusterProfiler::simplify on merge_result list
clusterProfiler
14 months ago Valéria • 0
3
votes
2
replies
1.8k
views
ERROR in EnrichKEGG(), 'species should be listed' in, download method do not change
KEGG DESeq2 biomaRt clusterProfiler org.Mm.eg.db
updated 15 months ago by ★ 4.1k • written 15 months ago by ▴ 10
0
votes
3
replies
2.1k
views
gseaplot2 from enrichplot for gene set enrichment analysis comparing two datasets
enrichplot GSEA clusterProfiler
updated 12 months ago by • 0 • written 15 months ago by • 0
0
votes
3
replies
2.3k
views
Not able to install clusterProfiler
clusterProfiler
updated 9 months ago by • 0 • written 16 months ago by • 0
0
votes
0
replies
518
views
Downstream analysis of DEG for non-model organisms.
axolotl KEGG GOstats clusterProfiler
16 months ago georgii.vdovin • 0
2
votes
5
replies
3.7k
views
How to use EnrichGo of Cluster Profiler
EnrichGO clusterProfiler
written 3.8 years ago by • 0
0
votes
1
reply
1.4k
views
How to Load a Molecular Signature Database into clusterProfiler gseGO?
gseGO GeneSet clusterProfiler GeneSetEnrichment
updated 16 months ago by 67k • written 16 months ago by • 0
50 results • Page 1 of 1
Recent ...
Replies
Comment: How to extract phastcons score for all protein coding genes and lncRNAs using Ge by Robert Castelo ★ 3.4k
Hi, this is a long comment thread on 4-year old post, please open a new post with you question. To increase the odds of getting useful answ…
Answer: DESeq2 rerun returns different results by ATpoint ★ 4.5k
DESeq2 is deterministic if you use same input, code and software versions. Make sure to version-control your environment by at least tracki…
Answer: [How to construct a model.matrix ] by Gordon Smyth 51k
> Initially, I simply used > `lm(Epigenetic_age ~ Age_group + Age + Sex + PC1 + PC2 + PC3 + PC4 + PC5 + B + CD4T + CD8T + Mono + NK + Neutr…
Comment: How to extract phastcons score for all protein coding genes and lncRNAs using Ge by rania.alanany • 0
Hi Robert, Thank you for the explanation, But I am still little bit confused, Is the annotation package (TxDb.Hsapiens.UCSC.hg38.knownGene)…
Comment: Merge Replicates vs Mixed Model by abadgerw • 0
@gabrielhoffman any insight?
Votes
A: Some questions for remove batch effect by using mnnCorrect
A: Recommendations for combining multiple 10x runs into one SingleCellExperiment
Answer: [How to construct a model.matrix ]
Answer: Handling biological replicates in DESeq2
Comment: biomaRt rnorvegicus_gene_ensembl not available anymore
Awards • All
Popular Question to Robert Castelo ★ 3.4k
Popular Question to Michael Stadler ▴ 350
Scholar to ATpoint ★ 4.5k
Commentator to James W. MacDonald 67k
Popular Question to Stefano Mangiola ▴ 20
Locations • All
United States, 13 minutes ago
France, 18 minutes ago
United States, 27 minutes ago
United Kingdom, 30 minutes ago
United States, 49 minutes ago
Traffic: 833 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