YuLab-SMU clusterProfiler issues

YuLab-SMU / clusterProfiler

:bar_chart: A universal enrichment tool for interpreting omics data

https://yulab-smu.top/biomedical-knowledge-mining-book/

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issues

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How to combine different compareCluster results?

#678 Kyeongmi-Lee opened 6 months ago
1
How to split the results of compareCluster?

#677 Ldec12 opened 6 months ago
1
heatplot function; color scale is switched

#676 zellerivo opened 6 months ago
1
compareCluster's enrichGO difference in results when stating ont = "ALL" vs NULL

#675 jestlin15 closed 6 months ago
1
change in name of wikipathway file and enrichWP function do not work anymore

#674 boutrys closed 6 months ago
2
How to generate gseaplots from the result of compareCluster gseaGO or gseaKEGG functions?

#673 JiahuaQu opened 6 months ago
2
Entire species designation is included in KEGG Pathway name

#670 npokorzynski closed 7 months ago
4
problem in run compareCluster

#669 gongxin8888 opened 7 months ago
4
[feature request] Support metabolite enrichment analysis

#668 Landau1994 closed 5 months ago
2
How to color code cnetplot nodes from enrichrResult data

#667 hlnicholls opened 7 months ago
4
Trouble with gseKEGG on mac sonoma 14.2

#666 annecar opened 8 months ago
1
Not able to install clusterProfiler on Colab

#665 pmhchang opened 8 months ago
3
fix: :bug: fix some mistake in KEGG category

#664 ryuzheng closed 7 months ago
1
Dotplot() cannot change color

#663 GuanKX99 closed 7 months ago
2
Update kegg_category.rda

#662 ryuzheng closed 8 months ago
0
Unable to load clusterProfiler (4.11.0.00) - object ‘ls2df’ not exported by 'namespace:yulab.utils'`

#661 zoezhao1030 closed 8 months ago
0
Cannot library(clusterProfiler)

#660 HLinChen closed 8 months ago
2
GSEA long time no response

#659 Xingsongli opened 8 months ago
23
Emmaplot with the top activated and supressed from dotplot?

#658 Leandromvelez opened 8 months ago
4
When there's only one term ID in the dataframe passed as TERM2GENE in enricher

#657 mansi-aggarwal-2504 opened 8 months ago
0
update CITATION

#656 Clearmind777 closed 8 months ago
0
clusterProfiler custom annotated list

#655 mansi-aggarwal-2504 closed 9 months ago
2
compareCluster does not give a warning/message that numeric universe is ignored for fun = "enrichGO"

#654 IwanParf opened 9 months ago
0
How to use compareCluster for GSEA on the Msigdb database?

#653 Ldec12 opened 9 months ago
4
gseKEGG()函数运行时出错

#652 ZhanshenWu opened 9 months ago
6
compareCluster Function Support for gsonList Objects in clusterProfile?

#650 Chris-lang478 opened 9 months ago
0
Error in download.file(url, quiet = quiet, method = "libcurl"), libcurl cannot be change

#648 Junyan1996 opened 10 months ago
2
Change Font Size of Dot Plot's Features

#647 jennymaga opened 10 months ago
1
enrichKegg Bug

#646 zellerivo opened 10 months ago
8
No gene can be mapped

#645 clydeghost closed 5 months ago
1
富集分析时出现 no slot of name "dr" for this object of class "enrichResult"

#644 xiaohuangjia opened 10 months ago
1
enrichWP throws error while reading wikipathway GMT file

#643 rama289 closed 9 months ago
5
Unable to install

#642 imrank11 opened 10 months ago
1
Package installation error of package MPO.db

#641 zhouyuheng19980624 opened 10 months ago
1
Package installation pause of clusterProfiler

#640 ShixiangWang closed 10 months ago
1
dotplot() error after compareCluster() for fun = "groupGO" with data(gcSample)

#639 sunta3iouxos opened 10 months ago
1
GO enrichGO using input from g:orth and using biomaRt

#638 Guerande29 closed 10 months ago
2
enricher() doesn't extract GO descriptions from TERM2NAME

#637 silasmellor closed 11 months ago
2
Enricher - universe calculation unclear?

#636 christianmaueroeder opened 11 months ago
7
enricher报错在进行非模式生物的KEGG富集分析

#635 Tsebifera opened 11 months ago
2
No gene sets have size between 1 and 500 but I see there are many intersecting genes between pathway and input genes

#634 parkjooyoung99 closed 11 months ago
5
Better URL for WikiPathways data archive

#633 AlexanderPico closed 8 months ago
1
Wikipathways organisms not linked

#632 aseveritt closed 11 months ago
2
simplify returns <0 rows> (or 0-length row.names)

#631 RLuknarova opened 12 months ago
1
您好，无参考基因组物种采用enricher进行GO富集分析,但是采用emapplot进行作图，为何不出图

#630 hecyan opened 1 year ago
3
R version 4.0.2 and Bioconductor version 3.11 : dependencies 'europepmc' is not available.

#629 nilanjana1996 opened 1 year ago
1
How to make the graph drawn by plotGOgraph contain a legend

#628 YuXia0 opened 1 year ago
1
Order By = GeneRatio in Clusterprofiler

#627 dhananyashunmugam opened 1 year ago
0
Error in enrichKEGG() function

#626 BIGRICEgo opened 1 year ago
4
High pvalues - Seurat

#625 Ahmedalaraby20 opened 1 year ago
0

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