Mercurial > repos > kpbioteam > clusterprofiler_bitr
comparison clusterProfiler_bitr.R @ 0:e7a71e686f53 draft
planemo upload for repository https://github.com/kpbioteam/clusterProfiler_bitr commit 470dccce41afc79ef1cc7a6722b50d0c258e0f4f
| author | kpbioteam |
|---|---|
| date | Mon, 19 Mar 2018 14:03:04 -0400 |
| parents | |
| children | 90120121398f |
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| -1:000000000000 | 0:e7a71e686f53 |
|---|---|
| 1 require("clusterProfiler", quietly = TRUE) | |
| 2 require("org.Hs.eg.db", quietly = TRUE) | |
| 3 | |
| 4 args <- commandArgs(trailingOnly = TRUE) | |
| 5 | |
| 6 input1 = args[1] | |
| 7 input2 = args[2] | |
| 8 input3 = args[3] | |
| 9 output = args[4] | |
| 10 | |
| 11 gene <- c(read.table(input1)) | |
| 12 gene.df = bitr(gene$V1, fromType=input2, toType=input3, OrgDb="org.Hs.eg.db") | |
| 13 | |
| 14 write.table(gene.df,file = output,row.names = FALSE) |