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GuangchuangYu/msigdf_clusterprofiler.R

Created August 17, 2016 17:14
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msigdf_clusterprofiler.R
## devtools::install_github("stephenturner/msigdf")
library(msigdf)
library(dplyr)
library(clusterProfiler)
c2 <- msigdf.human %>%
filter(collection == "c2") %>% select(geneset, entrez) %>% as.data.frame
data(geneList)
de <- names(geneList)[1:100]
x <- enricher(de, TERM2GENE = c2)
y <- GSEA(geneList, TERM2GENE = c2)
head(x)
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