|MetaMap 2008 Usage|
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Usage: metamap08 [Options] [Input File]
MetaMap maps (matches) text (from documents, queries) into concepts from the UMLS Metathesaurus. Text is taken through a series of modules and broken down into the components that include sentences, phrases, lexical elements and tokens. Variants are generated from the resulting phrases, and candidate concepts from the UMLS Metathesaurus are retrieved and evaluated against their phrases. The resulting concepts are organized in such a way as to best cover the text, known as a final mapping.
MetaMap is highly configurable, and its behavior is controlled by option flags, each of which has a short name (e.g., -I) and a long name (e.g., --show_cuis).
File Options: When MetaMap is run on the command line, the default input and output are standard input and output. MetaMap allows specifying input and output files on the command line, but the order in which they are specified is important:
% metamap08 [Options] InputFile OutputFileThe InputFile and OutputFile arguments, if specified, must be the last two arguments. It is not necessary to specify OutputFile, because the output file will default to <InputFile>.out. Note that if the output file (whether specified on the command line or not) is an existing file, the existing file will be overwritten and its original contents lost.
Note For MMTX Users: Please note the difference with MetaMap where there are no option flags for specifying the input and output file names! The input and output file names are specified directly on the command line without options with Metamap and if no filename is specified, MetaMap assumes standard in and out.
Data Options: Data options determine the underlying vocabularies and data model used by MetaMap.
Processing Options: Processing options control MetaMap's internal behavior.
Output Options: Output options control how MetaMap displays results.
|Last Modified: April 23, 2015||ii-public2|
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