I have time-course data as "Day1", "Day2"....., when I create the list for compareCluster(), I have named the order as levels(list) = c("Day1","Day2"....), and I check the compareCluster() result, CompGO@compareClusterResult$Cluster, shows the order is "Day1", "Day2".... However, when I plot the data, the X-axis show the disorder characters. How can I fix the problem?
And one more problem when I use enricher() function, also return no gene mapped:
egmt_go <- enricher(DEG_Day9_ENTREZID, TERM2GENE = c_go,
+ pvalueCutoff = 0.5, pAdjustMethod = "BH", universe,
+ minGSSize = 10, maxGSSize = 500, qvalueCutoff = 0.2)
--> No gene can be mapped....
--> Expected input gene ID: DNAJB1,ZFP36,PDE3A,POLE,AADAT,DIS3
--> return NULL...
The genes have been converted into EntrezID, more than 500 gene, should be match to GO or KEGG database.