KEGG<-enrichKEGG(gene=gene.df$ENTREZID, organism = 'hsa',pvalueCutoff = 0.05) Reading KEGG annotation online: fail to download KEGG data... Error in download.KEGG.Path(species) : 'species' should be one of organisms listed in 'http://www.genome.jp/kegg/catalog/org_list.html'... In...
createKEGGdb::create_kegg_db(species) # Reading KEGG annotation online: "https://rest.kegg.jp/list/pathway/hsa"... # Reading KEGG annotation online: "https://rest.kegg.jp/list/pathway/mmu"... # Reading KEGG annotation online: "https://rest.kegg.jp/link/hsa/pathway"... # 2024-09-...
> createKEGGdb::create_kegg_db(c('hsa','mmu')) Reading KEGG annotation online: "https://rest.kegg.jp/list/pathway/hsa"... Reading KEGG annotation online: "https://rest.kegg.jp/list/pathway/mmu"... Reading KEGG annotation online: "https://rest.kegg.jp/link/hsa/pathway"... 2023-...
kk <- enrichKEGG(gene = trans$ENTREZID, organism = 'hsa', pvalueCutoff = 0.05) ## Reading KEGG annotation online: ## ## Reading KEGG annotation online: 画图 点图: 代码语言:javascript 代码运行次数:0 运行 AI代码解释 dotplot(kk, showCategory = 10) 条形图: 代码语言:javascript 代码运行...
Therefore, in the process of bioinformatics analysis, KEGG pathway enrichment analysis is often applied to the functional annotation of differentially expressed genes to understand the related functions and pathways of differentially expressed genes. The KEGG pathway enrichment analysis can be used for ...
Reading KEGG annotation online: fail to download KEGG data... Error in download.KEGG.Path(species) : 'species' should be one of organisms listed in 'http://www.genome.jp/kegg/catalog/org_list.html'... In addition: Warning message: In utils::download.file(url, quiet = TRUE, method =...
Reading KEGG annotation online: "https://rest.kegg.jp/link/hsa/pathway"... Error in file(con, "r") : cannot open the connection to 'https://rest.kegg.jp/link/hsa/pathway' 此外: Warning message: In file(con, "r") : URL 'https://rest.kegg.jp/link/hsa/pathway': status was 'SS...
kk <- enrichKEGG(gene = gene,organism = "hsa",pvalueCutoff =0.05,qvalueCutoff =1)## Reading KEGG annotation online:### Reading KEGG annotation online:head(kk)## ID Description GeneRatio BgRatio## hsa04110 hsa04110 Cell cycle 28...
Reading KEGG annotation online: fail to download KEGG data... Errorindownload.KEGG.Path(species) : 'species'should be one of organisms listedin'/kegg/catalog/org_list.html'... In addition: Warning message: In utils::download.file(url, quiet = TRUE, method = method, ...) : URL'/link...
ReadingKEGGannotationonline:"https://rest.kegg.jp/link/hsa/pathway"...ReadingKEGGannotationonline:"https://rest.kegg.jp/list/pathway"...Warningmessages:1:Inutils::download.file(url,quiet=TRUE,method=method,...):the'wininet'methodisdeprecatedforhttp://andhttps://URLs2:Inutils::download.file(...