Showing : enrichplot • reset
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Error in cnetplot
enrichplot clusterProfiler
updated 4 weeks ago by ★ 4.1k • written 5 weeks ago by • 0
8
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6
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7.9k
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Using the plotting functions of clusterProfiler / enrichplot with enrichment results from other programs
clusterProfiler enrichplot
updated 11 months ago by ▴ 30 • written 6.0 years ago by ▴ 180
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1
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2.0k
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compareCluster dotplot: how to modify the genesets order
DOSE enrichplot clusterProfiler
updated 12 months ago by ★ 4.1k • written 12 months ago by • 0
2
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2
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1.4k
views
padj-based gradient scale from barplot (clusterProfiler results) does not work properly
enrichplot barplot clusterProfiler
13 months ago Eva ▴ 10
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6
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4.3k
views
Looking for documentation about the use of "split = .sign" in enrichplot's dotplot
enrichplot
15 months ago • updated 14 months ago Tobias • 0
0
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1
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767
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visualizing GSEA showCategory question
enrichplot
updated 15 months ago by 68k • written 15 months ago by • 0
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2
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1.3k
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enrichPlot error when plotting topGO results
topGO enrichplot
updated 18 months ago by 68k • written 18 months ago by • 0
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607
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HeatPlot - Genes selections
enrichplot stringr heatplot
20 months ago ruba-mahmoud • 0
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3
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2.8k
views
gseaplot2 from enrichplot for gene set enrichment analysis comparing two datasets
enrichplot GSEA clusterProfiler
updated 18 months ago by • 0 • written 20 months ago by • 0
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5
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1.9k
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plot enrichment results
enrichplot clusterProfiler
updated 22 months ago by ▴ 760 • written 22 months ago by • 0
2
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4
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2.9k
views
Change dotsize to be the same in multiple plots - enrichplot dotplot
enrichplot clusterProfiler
23 months ago Tyroone • 0
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1
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1.9k
views
Am I able to add gene names/symbols to an enrichGO() output?
clusterProfiler enrichplot
updated 2.1 years ago by ★ 4.1k • written 2.1 years ago by • 0
0
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1
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926
views
Libraries loading error
DESeq2 clusterProfiler enrichplot
updated 2.3 years ago by 43k • written 2.3 years ago by • 0
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5
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3.4k
views
How can I limit the number of displayed genes in heatplot
heatplot enrichplot
updated 20 months ago by • 0 • written 2.4 years ago by • 0
2
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3
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3.5k
views
GSEA only returning 1 GO term - unable to map Ensembl IDs with decimals?
AnnotationDbi GO clusterProfiler enrichplot ensembldb
updated 2.6 years ago by ▴ 150 • written 2.6 years ago by ▴ 10
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1
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2.4k
views
Treeplot by enrichplot
clusterProfiler enrichplot treeplot
updated 2.5 years ago by ★ 1.2k • written 2.6 years ago by • 0
3
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5
replies
4.7k
views
how to color specific node or gene symbol from cnetplot ?
clusterProfiler enrichplot cnetplot GuangchuangYu
updated 2.7 years ago by ★ 1.2k • written 2.9 years ago by ▴ 40
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3
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5.9k
views
Unable to generate a dotplot to view the enrichment analysis results (clusterProfiler/ enrichplot)
clusterProfiler enrichplot clusterpro doseR dose
updated 2.8 years ago by ★ 4.1k • written 2.8 years ago by ▴ 10
1
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1
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1.5k
views
Dotplot from enricher outputting very few genes
clusterProfiler enrichplot
updated 2.9 years ago by ★ 4.1k • written 2.9 years ago by ▴ 30
1
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3
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9.4k
views
GSVA and ssGSEA output differences
enrichment GSVA enrichplot ssGSEA
updated 3.1 years ago by ★ 3.4k • written 3.1 years ago by • 0
0
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1
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1.5k
views
Cluster Profiler output not the same as Enrichr output
enrichplot clusterProfiler
updated 3.1 years ago by • 0 • written 3.2 years ago by ▴ 10
5
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13
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6.1k
views
Getting error
enrichplot clusterProfiler org.Hs.eg.db
updated 3.1 years ago by ▴ 50 • written 3.1 years ago by • 0
2
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1
reply
1.9k
views
How to keep cells square in heatplot function of enrichplot
clusterProfiler enrichplot heatplot
3.4 years ago fatimaruizdelabastida ▴ 10
0
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1
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2.0k
views
convert regular data matrix or data frame to enrichResult object for bioconductor package enrichplot
enrichplot
updated 3.4 years ago by • 0 • written 3.4 years ago by ▴ 10
0
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2
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1.9k
views
Unable to open igraph.so even though the file is present.
enrichplot clusterProfiler R
3.5 years ago Adarsh • 0
2
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4
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3.9k
views
enrichDGN result can't be visualised by barplot
enrichplot
3.6 years ago Pahi ▴ 10
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0
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1.7k
views
EnrichGO
R enrichplot
updated 3.7 years ago by ★ 4.0k • written 3.7 years ago by • 0
1
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4
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6.7k
views
Issues with scaling down enrichplot's dotplot and gseaplot2 plots
RNASeq clusterProfiler enrichplot
updated 3.1 years ago by • 0 • written 3.8 years ago by • 0
2
votes
6
replies
8.8k
views
color scale in cnetplot (enrichplot) is not centered in 0, skewed towards positive values
enrichplot clusterProfiler
4.4 years ago • updated 4.3 years ago Emilia ▴ 40
0
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1
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1.7k
views
Cut down genes displayed on x axis from enrichPlot's heatplot() function
clusterProfiler GeneSetEnrichment enrichplot
updated 4.3 years ago by ▴ 40 • written 4.4 years ago by • 0
2
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1
reply
948
views
Parsing geoms to enrichplot
enrichplot
4.7 years ago Francois Marchildon ▴ 20
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0
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1.3k
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similarity coefficients used in emapplot {enrichplot} / gsePathway {ReactomePA} and simplify {clusterProfiler}
enrichplot ReactomePA clusterProfiler similarity coefficients emapplot
5.0 years ago jan.soderman • 0
0
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1
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2.6k
views
emapplot (enrichplot) with compareCluster object does not work
emapplot enrichplot clusterProfiler compareCluster
updated 5.2 years ago by ★ 4.1k • written 5.2 years ago by • 0
2
votes
4
replies
2.8k
views
Visualization of Functional Enrichment Result with enrichplot: How to control label size?
clusterProfiler enrichplot cnetplot
updated 5.3 years ago by 68k • written 5.3 years ago by ▴ 30
0
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0
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1.5k
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enrichplot packages - is there a way of dropping specific KEGG classes
enrichplot clusterProfiler enrichKEGG gseKEGG
6.2 years ago yurigorelik ▴ 10
0
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0
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2.0k
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Moving around nodes using emapplot {enrichplot} or enrichMap {DOSE}
enrichment map emapplot enrichplot enrichMap DOSE
6.9 years ago jan.soderman • 0
36 results • Page 1 of 1
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Comment: Filtering after DESeq by caroline.zanchi • 0
I am going to try this right now, thanks !
Comment: Bioconductor 3.20 Release Schedule by randyprice13102000 • 0
This offers much info https://bioconductor.org/checkResults/release/bioc-LATEST/
Comment: Filtering after DESeq by ATpoint ★ 4.8k
The problem is that your prefilter is not group-aware so the behaviour of seeing these sorts of outliers is expected. This is why I always …
Comment: GSEA preranked analysis downstream of DEseq2 by ATpoint ★ 4.8k
All due respect, this is what people do since pvalues exist, so this paper is not a reference, not is this a special score that merits a na…
Comment: Check removeBatchEffect effectiveness by ATpoint ★ 4.8k
> insert size, mean GC, etc... This is not a classical "batch" in the common sense, at least I've never seen this to be corrected for expl…
Votes
Comment: Filtering after DESeq
Answer: DiffBind; Error: No sites have activity greater than filter value
DiffBind; Error: No sites have activity greater than filter value
remove X and Y chromosome genes in RNA-seq data using DESeq2 pipeline
How to remove X & Y chromosome genes from RNAseq data
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