simplifyEnrichment
simplifyEnrichment copied to clipboard
jokergoo
Simplify functional enrichment results
hello, I want to compare the enrichment results for three different BP go id list. I created a matrix in excel to simplifyGOFromMultipleLists(). The first column contains the go id's,...
Hi Zuguang, I am using the simplest script with simplifyEnrichment like: go_sm
I have installed ComplexHeatmap. Once, I am using it to plot heatmap using metadata. It is showing me an error: "Error in anno_zoom(...) : unused arguments (add_new_line = TRUE, value_range...
Hi, Thanks for the cool software! I am using it compare multiple lists with simplifyGOFromMultipleLists, and got the plot of GO annotations after binary cut. I would like to ask...
Hi there, When clustering pathways I often get clusters of singletons. How would you suggest to "deal" with them? Perhaps merge them based on the created dendrogram?
After seeing I could not retrieve the dendrogram created by `binary_cut` (#78 ) I propose the following pull request where: 1. I added `return_dend = FALSE` to both `cluster_mat` and...
When using binary cut is there a way to retrieve the dendrogram created by the algorithm? Looking at the code of `binary_cut` and `plot_binary_cut` it seems like `binary_cut` could have...
I am trying to make a simplifyEnrichment heatmap to group my GO:BP terms. I am able to use GO_similarity to create my similarity matrix. But at `simplifyGO(Ureg_mtx, method = "binary_cut",...
Great jobs！Recently i txt the example but i found a unexpected bug as follow： Code: simplifyGOFromMultipleLists(lt, padj_cutoff = 0.001) Bug: Error in anno_block(width = unit(1.2, "cm"), panel_fun = function(index) grid.text(qq("Number...
Hi jokergoo, thank you for the awesome package! I have an issue with `simplifyGOFromMultipleLists()` It looks like it doesn't work with `ont` argument. Please, take a look on output below...
