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Datasets and Test Collections. MEDLINE Baseline Statistical Reports (BSD link). MEDLINE Co-Occurrence File (MRCOC). MEDLINE Baseline Repository (MBR). MUID to PMID Conversion Files. Access to our Tools. Medical Text Indexer (MTI). MeSH on Demand (MeSH link). MTI ML (Machine Learning Package). Specialist Lexicon Information and Tools. Word Sense Disambiguation (WSD). Welcome to NLM's Indexing Initiative. 2018 MEDLINE Baseline MRCOC files now available. Freedom of Information Act. January 26, 2018.

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Indexing Initiative | ii.nlm.nih.gov Reviews

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Datasets and Test Collections. MEDLINE Baseline Statistical Reports (BSD link). MEDLINE Co-Occurrence File (MRCOC). MEDLINE Baseline Repository (MBR). MUID to PMID Conversion Files. Access to our Tools. Medical Text Indexer (MTI). MeSH on Demand (MeSH link). MTI ML (Machine Learning Package). Specialist Lexicon Information and Tools. Word Sense Disambiguation (WSD). Welcome to NLM's Indexing Initiative. 2018 MEDLINE Baseline MRCOC files now available. Freedom of Information Act. January 26, 2018.

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Indexing Initiative | ii.nlm.nih.gov Reviews

https://ii.nlm.nih.gov

Datasets and Test Collections. MEDLINE Baseline Statistical Reports (BSD link). MEDLINE Co-Occurrence File (MRCOC). MEDLINE Baseline Repository (MBR). MUID to PMID Conversion Files. Access to our Tools. Medical Text Indexer (MTI). MeSH on Demand (MeSH link). MTI ML (Machine Learning Package). Specialist Lexicon Information and Tools. Word Sense Disambiguation (WSD). Welcome to NLM's Indexing Initiative. 2018 MEDLINE Baseline MRCOC files now available. Freedom of Information Act. January 26, 2018.

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ii.nlm.nih.gov

1

Full Text Processing

https://ii.nlm.nih.gov/fulltext.shtml

Another major area of planned research recognizes the fact that our current indexing methods rely only on titles and abstracts, while human indexers base their analysis on the full text of an article. This restriction causes the computer-generated terms to suffer recall errors in comparison to the humanly assigned document descriptors. Given the increasing availability of machine readable full text, we have an ongoing full text processing effort. Freedom of Information Act. September 30, 2015.

2

Indexing Initiative: MTI ML

https://ii.nlm.nih.gov/MTI_ML/index.shtml

MTI ML - Machine Learning Package. The MTI ML package is protected under the MetaMap Terms and Conditions. Please review prior to downloading the MTI ML package. This website describes how to download, install and run MTI ML. An example data set is provided to verify the installation of the tool. More detailed instructions on using the tool are available here. The latest changes in the MTI ML package can be found in the release notes here. Which is available via the link below. MTI ML.tar.gz. MTI ML has ...

3

Interactive Medical Text Indexer (MTI)

https://ii.nlm.nih.gov/Interactive/mti.shtml

Interactive NLM Medical Text Indexer (MTI). Currently Producing 2016 MeSH Terms. The MTI results are machine generated by MTI and DO NOT reflect any human review. These results will undoubtedly differ from any human generated indexing. Text to be Processed. Single block of text, maximum 10,000 characters):. Filtering (pick one, may add modifier). Default for MEDLINE Citations. Default for Non-MEDLINE Text. Special Output (raw results). Option-1 for MEDLINE Citations. Option-1 for Non-MEDLINE Text. Show D...

4

About Indexing Initiative

https://ii.nlm.nih.gov/About/index.shtml

US National Library of Medicine. National Institutes of Health. Datasets and Test Collections. MEDLINE Baseline Statistical Reports (BSD link). MEDLINE Co-Occurrence File (MRCOC). MUID to PMID Conversion Files. Access to our Tools. Medical Text Indexer (MTI). MEDLINE Baseline Repository (MBR). MTI ML (Machine Learning Package). Word Sense Disambiguation (WSD). What is the Indexing Initiative? What is the Indexing Initiative? In the face of a growing workload and dwindling resources, we have undertaken th...

5

Indexing Initiative News Article Archive

https://ii.nlm.nih.gov/news.shtml

Indexing Initiative News Article Archive. The NLM Medical Text Indexer Providing Baseline for International BioASQ Challenge (Aug. 6, 2013). Freedom of Information Act. October 06, 2014.

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mmtx.nlm.nih.gov

Data File Builder

https://mmtx.nlm.nih.gov/DataFileBuilder.shtml

Freedom of Information Act. Brief documentation on installing the MetaMap Data File Builder is in the Datafile Builder README. Instructions on how to use datafile builder is in the MetaMap Data File Builder Manual. Mac OS/X users see also the file README macosx.html (online version). Addendum to Datafile Builder Manual:. In early versions of the 2013 Manual, Section 7.2. Using a UMLS Metathesaurus Subset". More on creating a MetaMap Dataset. Both a zip archive (efo2dfb.zip). Bzip2 Tar - 31 MB). Windows X...

mmtx.nlm.nih.gov

MetaMap Java API

https://mmtx.nlm.nih.gov/JavaApi.shtml

Freedom of Information Act. The MetaMap Java API allows Java programs to access the MetaMap mapping engine. This release contains the set of Java Classes that comprise the API and the MetaMap's Mapping Engine Server. In order to use the MetaMap Java API release the following packages are required:. The full version of MetaMap must be downloaded from MetaMap Full Download. And installed before installing the Java API distribution. Java Runtime Environment (JRE) 1.8 or later. The Java API Release (2016).

mmtx.nlm.nih.gov

What's New in MetaMap?

https://mmtx.nlm.nih.gov/News.shtml

What's New in MetaMap? Freedom of Information Act. February 2016 - MetaMap 2016 Release. MetaMap 2016 includes the much-requested and long-awaited functionality of ad-hoc exclusions of unwanted results. And a utility program for converting UTF-8 to ASCII. More information on these changes are described in the Release Notes for MetaMap16. August 2014 - MetaMap 2014 Release. More information on these changes are described in the Release Notes for MetaMap14. September 2013 - MetaMap 2013 Release. July 2012 ...

metamap.nlm.nih.gov

MetaMap

https://metamap.nlm.nih.gov/MetaMap.shtml

Freedom of Information Act. MetaMap requires a minimum of 16GB of disk space when it has been uncompressed. MetaMap requires a minimum of 2GB of memory to run. At least 4GB is recommended. You will need a working version of bunzip2 to uncompress the MetaMap download file. If you do not have a copy of bunzip2, it is available from http:/ www.bzip.org/. NOTE: if you plan on creating your own datasets using the MetaMap Datafile Builder suite. JRE 17 or greater is required. First to get a feel for how MetaMa...

metamap.nlm.nih.gov

Word Sense Disambiguation Server (WSD Server)

https://metamap.nlm.nih.gov/WSDServer.shtml

Word Sense Disambiguation Server (WSD Server). Freedom of Information Act. In cases where MetaMap maps two or more concepts to a recognized entity in text, the WSD Server will attempt to determine which concept is the best choice for the entity using context in which the entity occurs. Server allows one to use either the included disambiguation methods or ones supplied by the user. The WSD Server is protected under the MetaMap Terms and Conditions. Please review prior to downloading the WSD Server package.

metamap.nlm.nih.gov

MetaMap

https://metamap.nlm.nih.gov/DescriptionOfDataVersions.shtml

Description of MetaMap Data Versions. Freedom of Information Act. In order to accommodate the UMLS source-vocabulary licensing permissions and processing requirements of as many users as possible, MetaMap releases beginning in 2011 have included three distinct versions of the data that are based mostly on the Restriction Categories of Metathesaurus source vocabularies. (See the. Tab on the UMLS Source Release Documentation page. This version includes the Base vocabularies (those with Restriction Category...

metamap.nlm.nih.gov

MetaMap Print - A Tool for Tranforming MetaMap Machine Output

https://metamap.nlm.nih.gov/MMPrint.shtml

MetaMap Print - A Tool for Tranforming MetaMap Machine Output. Freedom of Information Act. The MM Print program can convert MetaMap machine output to a number of formats including: Human readable output, MetaMap XML, and other formats. MetaMap Print 2015 Downloads. MetaMap Print 2015 Release for Linux. Tar Bzip2 archive - 16 MB [sha1sum]. Windows XP and Windows 7. MetaMap Print 2013 Downloads. MetaMap Print 2013 Release for Linux. Tar Bzip2 archive - 16 MB [sha1sum]. Windows XP and Windows 7.

metamap.nlm.nih.gov

Semantic Types and Groups

https://metamap.nlm.nih.gov/SemanticTypesAndGroups.shtml

Semantic Types and Groups. Freedom of Information Act. Do you have a list of Semantic Types and how do I map their abbreviations to their full names? The Semantic Type information is contained in the UMLS SRDEF file obtained when you download the UMLS Metathesaurus and run MetamorphoSys. For lines beginning with STY, the third field contains the full name of the semantic type and the ninth field contains the abbreviation. Abbreviation Type Unique Identifier (TUI) Full Semantic Type Name.

metamap.nlm.nih.gov

Using MetaMap

https://metamap.nlm.nih.gov/UsingMetaMap.shtml

Freedom of Information Act. For more information on running MetaMap and its many options, please see these references:. MetaMap Readme Files, Usage Notes, and Release Notes. MetaMap 2016 Release Notes. MetaMap 2016 Usage Notes. Fielded MetaMap Indexing (MMI) Output Explained 2016. MetaMap 2014 Release Notes. MetaMap 2014 Usage Notes. MetaMap 2013 Usage Notes. MetaMap 2013 Release Notes. MetaMap 2012 XML Output Explained. MetaMap 2012 Machine Output Explained. Public MetaMap Specific Documentation.

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ii.nlm.nih.gov

Indexing Initiative

Datasets and Test Collections. MEDLINE Baseline Statistical Reports (BSD link). MEDLINE Co-Occurrence File (MRCOC). MEDLINE Baseline Repository (MBR). MUID to PMID Conversion Files. Access to our Tools. Medical Text Indexer (MTI). MeSH on Demand (MeSH link). MTI ML (Machine Learning Package). Specialist Lexicon Information and Tools. Word Sense Disambiguation (WSD). Welcome to NLM's Indexing Initiative. 2018 MEDLINE Baseline MRCOC files now available. Freedom of Information Act. January 26, 2018.

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