Created
January 7, 2014 21:31
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Automatic curation of the mangal DB : fill in NCBI IDs using taxize
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| library(rmangal) | |
| library(taxize) | |
| api = mangalapi(usr='tpoisot', pwd='nope, not telling you') | |
| all_taxa = listTaxa(api) | |
| for(tax in all_taxa) | |
| { | |
| identifier <- get_uid(tax$name, ask = FALSE) | |
| if(! is.na(identifier)) tax$ncbi <- identifier[1] | |
| patchTaxa(api, tax) | |
| } | |
| all_taxa = listTaxa(api) |
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