enrichplot

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Hi, enrichplot developer. I'm having an issue with clusterProfiler enrichment analysis and visualising it using enrichplot, the dotplot only shows the most enriched one term and I'm not sure why...

lbwfff

pairwise_termsim Throws Error if No Significant Gene Sets

4

> Error in pairwise_termsim.enrichResult(x, method = method, semData = semData: no enriched term found... My supervisor has asked me to plot the top ten ranked sets if none are significant,...

DarioS

unexpected change of default colors/theme with enrichplot

7

I am having a similar issue to the one described here (https://support.bioconductor.org/p/9155167/#9155178). The default theme for the dotplots, etc. seems to have changed. Is there a way to revert it...

adalgarno

Hi, Thanks for developing the enrichplot package, I found it is very useful! When I was using the cnetplot function to plot Gene-Concept Network, I found there are no parameters...

yiluyucheng

Hello, It would be nice to be able to pass font face and colour to customize gene and gene set node labels separately. This would help readers to discern between...

kimsjune

why does my treeplot only appear partially?

2

like this?

chansigit

R-4.3.1: could not find function "offspring.tbl_tree_item"

5

SessionInfo() --- R version 4.3.1 (2023-06-16 ucrt) Platform: x86_64-w64-mingw32/x64 (64-bit) Running under: Windows 11 x64 (build 22631) Error: --- > ! # Invaild edge matrix for . A is returned....

benben-miao

emapplot and cnetplot customization (compareCluster)

5

Hi there, I was wondering whether it is possible to customize each arc color for the nodes (or the entire color of the larger nodes, if possible) to a colorblind...

plcardozo

Error in offspring.tbl_tree_item(.data = .data, .node = .node, tiponly = tiponly, : could not find function "offspring.tbl_tree_item"

3

LEfse %>% + ggdiffclade(obj=., + alpha=0.3, linewd=0.2, + skpointsize=0.6, + taxlevel=3, + settheme=FALSE, + setColors=FALSE, + cladetext=1.5, removeUnknown = F) + + guides(color = guide_legend(keywidth = 0.1, + keyheight =...

Leekate11

show all nodes but show select labels in emapplot

3

Hello, How can I modify the emapplot command to show all nodes(categories) but label only some of them? Specifying categories in "showCategory" labels those but removes all other nodes as...

SMM02