Guangchuang YUhttps://yulab-smu.top School of Basic Medical Sciences, Southern Medical University If you useclusterProfilerin published research, please cite the most appropriate paper(s) from this list: S Xu#, E Hu#, Y Cai#, Z Xie#, X Luo#, L Zhan, W Tang, Q Wang, B Liu, R Wa...
omics data analysis using clusterProfiler ;). Contribute to YuLab-SMU/clusterProfiler_protocol development by creating an account on GitHub.
Please show the lines of code you used as well as some of the input ids. Also, you may first want to update to the the latest versions ofRandBioconductor(your's is > 1 year old). I am suggesting this because under the hoodclusterProfilerdownloads files from the internet (e.g. KEGG,...
YuLab-SMU/clusterProfilerPublic NotificationsYou must be signed in to change notification settings Fork259 Star1.1k Code Issues337 Pull requests2 Discussions Actions Projects Wiki Security Insights Additional navigation options New issue Have a question about this project?Sign up for a free GitHub accoun...
gsea_BP_astro_33 <- gseGO( + gene_list, + ont = "BP", + OrgDb = org.Hs.eg.db, + keyType = "ENSEMBL", + minGSSize = 10, + maxGSSize = 500, + pvalueCutoff = 0.05, + by = "fgsea", + seed = TRUE, + pAdjustMethod = "fdr", + verbose = TRUE, + eps = 0, + ...
I was confused by GO terms popped out in my GO analysis using enrichGO. For example, "GO:0141091: transforming growth factor beta receptor superfamily signaling pathway" was reported as one of the top overrepresented GO in my sig DEGs. A...
YuLab-SMU / clusterProfiler Public Notifications Fork 254 Star 1k New issue Jump to bottom Retrieve the set of genes with assigned GO #698 Open m-bogaerts opened this issue Jun 17, 2024· 1 comment Open Retrieve the set of genes with assigned GO #698 m-bogaerts opened this ...
(test.out) = "compareClusterResult"... > # and according to chapter 14.1 of the book this should work. > # https://yulab-smu.top/biomedical-knowledge-mining-book/clusterprofiler-comparecluster.html#comparing-multiple-gene-lists > test.out <- setReadable(test.out, 'org.Hs.eg.db', '...
Hi, I"m using your R package "clusterprofiler" for gsea, but i keep encountering error "Error in if (abs(max.ES) > abs(min.ES)) { : missing value where TRUE/FALSE needed" , i checked my genelist input and theres no NA value, would you pl...
YuLab-SMU/clusterProfilerPublic NotificationsYou must be signed in to change notification settings Fork254 Star1k Code Issues329 Pull requests1 Discussions Actions Projects Wiki Security Insights Additional navigation options New issue Open Krithika-Bhuvanopened this issueOct 15, 2024· 4 comments ...