Showing : clusterprofiler • reset
0
votes
4
replies
130
views
error running enricher from clusterprofiler
clusterProfiler cluster
4 days ago Yael • 0
0
votes
1
reply
140
views
Gene set enrichment analysis
clusterProfiler GeneSetEnrichment
updated 6 days ago by ★ 4.0k • written 7 days ago by • 0
1
vote
1
reply
132
views
Cannabis OrgDb
KEGGgraph org.Cs.eg.db clusterProfiler KEGG AnnotationHubSoftware
updated 26 days ago by 65k • written 26 days ago by ▴ 10
2
votes
13
replies
483
views
Trying to use enrichGO
clusterProfiler GenomicDistributionsData KEGG
28 days ago • updated 25 days ago fernanda.backsouza ▴ 10
2
votes
2
replies
221
views
OrgDb for maize
clusterProfiler OrgDb biomaRt Zea_mays
updated 4 weeks ago by 65k • written 4 weeks ago by • 0
1
vote
2
replies
172
views
geneList error in clusterprofiler
clusterProfiler GeneSetEnrichment
4 weeks ago Ana • 0
2
votes
2
replies
215
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
199
views
compareCluster dotplot: how to modify the genesets order
DOSE enrichplot clusterProfiler
updated 5 weeks ago by ★ 4.0k • written 5 weeks ago by • 0
0
votes
1
reply
190
views
How can I create a GO plot with ggpubr and clusterProfiler libraries (begginer)
clusterProfiler ggpubr
updated 5 weeks ago by 65k • written 6 weeks ago by • 0
0
votes
0
replies
163
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
234
views
Only positive enrichment score in GSEA
clusterProfiler annotation gseGO gsea OrgDb
updated 8 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
294
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
1.7k
views
enrichGOgradient color change
clusterProfiler
updated 9 weeks ago by ★ 4.0k • written 6 months ago by • 0
1
vote
1
reply
214
views
Clsuter Profiler "counts"
enrich clusterProfiler
updated 3 months ago by 65k • written 3 months ago by • 0
2
votes
15
replies
733
views
Problems with enrichGO
clusterProfiler enrichGO
updated 3 months ago by 42k • written 3 months ago by • 0
0
votes
3
replies
460
views
Unable to install clusterProfiler
clusterProfiler
updated 3 months ago by • 0 • written 3 months ago by • 0
0
votes
2
replies
355
views
Problem with buildGOmap from clusterProfiler
clusterProfiler
3 months ago mello-vieira • 0
0
votes
1
reply
321
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
395
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
3
replies
888
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
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
0
votes
9
replies
707
views
It's possible to use clusterProfiler without an annotationDBI package
clusterProfiler
5 months ago nromerov • 0
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
1.3k
views
Annotation hub and clusterProfiler errors
clusterProfiler Annotationhub
updated 6 months ago by ★ 4.0k • written 6 months ago by • 0
0
votes
2
replies
501
views
Differential Expression Cutoffs for n = 1
clusterProfiler DESeq2
7 months ago georgii.vdovin • 0
0
votes
0
replies
389
views
clusterProfiler code to GO enrichment analysis seems to be incomplete
clusterProfiler DifferentialExpression
7 months ago nromerov • 0
0
votes
2
replies
684
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
904
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
0
votes
3
replies
1.4k
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
3
replies
1.5k
views
Not able to install clusterProfiler
clusterProfiler
updated 3 months ago by • 0 • written 10 months ago by • 0
0
votes
0
replies
362
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
869
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
0
votes
0
replies
870
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
12 months ago • updated 11 months ago Tyroone • 0
0
votes
1
reply
1.1k
views
Error in .testForValidKeys(x, keys, keytype, fks)
clusterProfiler AnnotationForge
updated 13 months ago by 3.9k • written 13 months ago by • 0
0
votes
5
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1.4k
views
enrichKEGG function error
cluster clusterProfiler KEGG
13 months ago • updated 12 months ago ruba-mahmoud • 0
1
vote
3
replies
1.2k
views
how to add an enrichment score to a kegg pathway enrichment analysis?
KEGG clusterProfiler Bioconductor
updated 13 months ago by ★ 4.0k • written 13 months ago by ▴ 10
0
votes
1
reply
613
views
what does "exp1" mean in the gage() function?
gage clusterProfiler DESeq2
updated 13 months ago by 65k • written 13 months ago by ▴ 10
0
votes
3
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4.0k
views
Reduce the number of nodes appear in the cnetplot of clusterprofiler
cnetplot R clusterProfiler
updated 14 months ago by ★ 4.0k • written 15 months ago by • 0
0
votes
1
reply
1.2k
views
Am I able to add gene names/symbols to an enrichGO() output?
clusterProfiler enrichplot
updated 14 months ago by ★ 4.0k • written 14 months ago by • 0
1
vote
3
replies
891
views
How to tell and visualize up/down regulation of pathways from clusterprofiler gsea output
clusterProfiler RNASeq
updated 25 days ago by ★ 1.2k • written 14 months ago by ▴ 10
4
votes
2
replies
4.5k
views
gseKEGG - no gene can be mapped (RNAseq analysis)
KEGG clusterProfiler
updated 14 months ago by ▴ 50 • written 14 months ago by • 0
1
vote
7
replies
1.9k
views
Problem with universe argument in enrichKEGG
KEGG clusterProfiler keggorthology
updated 14 months ago by ▴ 780 • written 14 months ago by ▴ 10
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
50 results • Page 1 of 1
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Comment: all variables in design formula must be columns in colData (Deseq2) error by Galina • 0
thank you!
Comment: all variables in design formula must be columns in colData (Deseq2) error by ATpoint ★ 4.1k
coldata_rat <- data.frame(conditions=..., batch=...)
Answer: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it by robersy • 0
Thank you all for your comments. I will follow your suggestions.
Comment: Numerical differences in DESeq2 output depending on different design matrix cons by Ken C • 0
Hi Michael, thanks a lot for your prompt reply! Not sure if this is appropriate or if you are the right person to ask -- is there anything…
Comment: Numerical differences in DESeq2 output depending on different design matrix cons by Ken C • 0
Well, if I look at genes with baseMean>50, then the relative absolute difference in log2FoldChange (say over the absolute log2FoldChange of…
Votes
biomaRt not working - lazy table error
Answer: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it
Comment: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it
Answer: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it
Comment: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it
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