Showing : enrichplot • reset
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127
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compareCluster dotplot: how to modify the genesets order
DOSE enrichplot clusterProfiler
updated 9 days ago by ★ 3.9k • written 13 days ago by • 0
2
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2
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238
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padj-based gradient scale from barplot (clusterProfiler results) does not work properly
enrichplot barplot clusterProfiler
5 weeks ago Eva ▴ 10
2
votes
6
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966
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Looking for documentation about the use of "split = .sign" in enrichplot's dotplot
enrichplot
12 weeks ago • updated 9 weeks ago Tobias • 0
0
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1
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233
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visualizing GSEA showCategory question
enrichplot
updated 3 months ago by 65k • written 3 months ago by • 0
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2
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584
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enrichPlot error when plotting topGO results
topGO enrichplot
updated 6 months ago by 65k • written 6 months ago by • 0
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0
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344
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HeatPlot - Genes selections
enrichplot stringr heatplot
7 months ago ruba-mahmoud • 0
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3
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1.3k
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gseaplot2 from enrichplot for gene set enrichment analysis comparing two datasets
enrichplot GSEA clusterProfiler
updated 6 months ago by • 0 • written 8 months ago by • 0
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5
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1.0k
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plot enrichment results
enrichplot clusterProfiler
updated 9 months ago by ▴ 730 • written 10 months ago by • 0
2
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4
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1.4k
views
Change dotsize to be the same in multiple plots - enrichplot dotplot
enrichplot clusterProfiler
11 months ago Tyroone • 0
0
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1
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1.2k
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Am I able to add gene names/symbols to an enrichGO() output?
clusterProfiler enrichplot
updated 13 months ago by ★ 3.9k • written 13 months ago by • 0
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1
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653
views
Libraries loading error
DESeq2 clusterProfiler enrichplot
updated 15 months ago by 41k • written 15 months ago by • 0
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5
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1.9k
views
How can I limit the number of displayed genes in heatplot
heatplot enrichplot
updated 7 months ago by • 0 • written 16 months ago by • 0
2
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3
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2.2k
views
GSEA only returning 1 GO term - unable to map Ensembl IDs with decimals?
AnnotationDbi GO clusterProfiler enrichplot ensembldb
updated 19 months ago by ▴ 120 • written 19 months ago by ▴ 10
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1
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1.5k
views
Treeplot by enrichplot
clusterProfiler enrichplot treeplot
updated 18 months ago by ★ 1.2k • written 19 months ago by • 0
3
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5
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3.1k
views
how to color specific node or gene symbol from cnetplot ?
clusterProfiler enrichplot cnetplot GuangchuangYu
updated 20 months ago by ★ 1.2k • written 23 months ago by ▴ 30
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3
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3.6k
views
Unable to generate a dotplot to view the enrichment analysis results (clusterProfiler/ enrichplot)
clusterProfiler enrichplot clusterpro doseR dose
updated 21 months ago by ★ 3.9k • written 21 months ago by ▴ 10
0
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1
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969
views
Dotplot from enricher outputting very few genes
clusterProfiler enrichplot
updated 22 months ago by ★ 3.9k • written 22 months ago by ▴ 10
1
vote
3
replies
5.4k
views
GSVA and ssGSEA output differences
enrichment GSVA enrichplot ssGSEA
updated 2.1 years ago by ★ 3.3k • written 2.1 years ago by • 0
0
votes
1
reply
1000
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Cluster Profiler output not the same as Enrichr output
enrichplot clusterProfiler
updated 2.1 years ago by • 0 • written 2.2 years ago by ▴ 10
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13
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4.1k
views
Getting error
enrichplot clusterProfiler org.Hs.eg.db
updated 2.1 years ago by ▴ 40 • written 2.1 years ago by • 0
1
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1
reply
1.4k
views
How to keep cells square in heatplot function of enrichplot
clusterProfiler enrichplot heatplot
2.4 years ago fatimaruizdelabastida • 0
0
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1
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1.3k
views
convert regular data matrix or data frame to enrichResult object for bioconductor package enrichplot
enrichplot
updated 2.4 years ago by • 0 • written 2.4 years ago by ▴ 10
0
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2
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1.4k
views
Unable to open igraph.so even though the file is present.
enrichplot clusterProfiler R
2.5 years ago Adarsh • 0
2
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4
replies
2.6k
views
enrichDGN result can't be visualised by barplot
enrichplot
2.5 years ago Pahi ▴ 10
0
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0
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1.3k
views
EnrichGO
R enrichplot
updated 2.7 years ago by ★ 3.9k • written 2.7 years ago by • 0
1
vote
4
replies
3.9k
views
Issues with scaling down enrichplot's dotplot and gseaplot2 plots
RNASeq clusterProfiler enrichplot
updated 2.1 years ago by • 0 • written 2.8 years ago by • 0
2
votes
6
replies
6.2k
views
color scale in cnetplot (enrichplot) is not centered in 0, skewed towards positive values
enrichplot clusterProfiler
3.3 years ago Emilia ▴ 30
0
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1
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1.4k
views
Cut down genes displayed on x axis from enrichPlot's heatplot() function
clusterProfiler GeneSetEnrichment enrichplot
updated 3.3 years ago by ▴ 30 • written 3.4 years ago by • 0
2
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1
reply
693
views
Parsing geoms to enrichplot
enrichplot
3.7 years ago Francois Marchildon ▴ 20
0
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0
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944
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similarity coefficients used in emapplot {enrichplot} / gsePathway {ReactomePA} and simplify {clusterProfiler}
enrichplot ReactomePA clusterProfiler similarity coefficients emapplot
4.0 years ago jan.soderman • 0
0
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1
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2.0k
views
emapplot (enrichplot) with compareCluster object does not work
emapplot enrichplot clusterProfiler compareCluster
updated 4.2 years ago by ★ 3.9k • written 4.2 years ago by • 0
2
votes
4
replies
2.1k
views
Visualization of Functional Enrichment Result with enrichplot: How to control label size?
clusterProfiler enrichplot cnetplot
updated 4.3 years ago by 65k • written 4.3 years ago by ▴ 30
8
votes
5
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4.0k
views
Using the plotting functions of clusterProfiler / enrichplot with enrichment results from other programs
clusterProfiler enrichplot
5.0 years ago • updated 22 months ago charles.foster ▴ 160
0
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0
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1.1k
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enrichplot packages - is there a way of dropping specific KEGG classes
enrichplot clusterProfiler enrichKEGG gseKEGG
5.2 years ago yurigorelik ▴ 10
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0
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1.5k
views
Moving around nodes using emapplot {enrichplot} or enrichMap {DOSE}
enrichment map emapplot enrichplot enrichMap DOSE
5.9 years ago jan.soderman • 0
35 results • Page 1 of 1
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Comment: How to tell and visualize up/down regulation of pathways from clusterprofiler gs by Guangchuang Yu ★ 1.2k
an example is also presented in <https://pubmed.ncbi.nlm.nih.gov/34557778/>.
Comment: Trying to use enrichGO by Guido Hooiveld ★ 3.9k
Nothing would prevent you from using the `enrichGO` function (or any other function for over-representation analysis [ORA]) with only 14 ge…
Comment: Different Shrunk Log2FC according with reference by andrebolerbarros ▴ 20
Thanks @atpoint for your answer! The issue with that is then it severely hinders the possiblity of using `apeglm` shrinking approach, sinc…
Comment: featureCounts reports an error:"featureCounts: input-files.c:2890: SAM_pairer_ge by ATpoint ★ 4.0k
The error that is relevant is `Aborted (core dumped)`. This line 2890 refers to the C source code that throws the error, it is not relevant…
Answer: Different Shrunk Log2FC according with reference by ATpoint ★ 4.0k
Please see: https://support.bioconductor.org/p/p134551/ I asked basically the same before. In short, reference level might have an influ…
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C: SGSeq: moving toward diffex from SGSeq analysis
DEXSeq-Error in FUN(X[[i]], ...) : subscript out of bounds
Subset DEXSeqDataSet In DEXSeq
How to get all possible comparisons in DiffBind
Comment: get BM error
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