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tmTools specifications

Information


Unique identifier OMICS_11326
Name tmTools
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Computer skills Advanced
Stability Stable
Maintained Yes

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Maintainer


  • person_outline Zhiyong Lu <>

Publication for tmTools

tmTools in pipeline

2017
PMCID: 5635478
PMID: 29090077
DOI: 10.1155/2017/7575280

[…] ctakes (http://ctakes.apache.org), freeling-med, metamap (https://metamap.nlm.nih.gov), medlee (http://www.medlingmap.org/taxonomy/term/80), tmchem (https://www.ncbi.nlm.nih.gov/cbbresearch/lu/demo/tmtools/tmchem.html), dnorm (https://www.ncbi.nlm.nih.gov/cbbresearch/lu/demo/tmtools/dnorm.html), gate (https://gate.ac.uk), or stanford corenlp tool (http://stanfordnlp.github.io/corenlp). from , […]


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tmTools in publications

 (4)
PMCID: 5635478
PMID: 29090077
DOI: 10.1155/2017/7575280

[…] ctakes (http://ctakes.apache.org), freeling-med, metamap (https://metamap.nlm.nih.gov), medlee (http://www.medlingmap.org/taxonomy/term/80), tmchem (https://www.ncbi.nlm.nih.gov/cbbresearch/lu/demo/tmtools/tmchem.html), dnorm (https://www.ncbi.nlm.nih.gov/cbbresearch/lu/demo/tmtools/dnorm.html), gate (https://gate.ac.uk), or stanford corenlp tool (http://stanfordnlp.github.io/corenlp). from , […]

PMCID: 5870729
PMID: 28881963
DOI: 10.1093/bioinformatics/btx228

[…] classes considered in our evaluation, we chose the presumably best performing and publicly available current ner tool: chemicals: we employed tmchem (https://www.ncbi.nlm.nih.gov/cbbresearch/lu/demo/tmtools/) () model i, considered as the state-of-the-art chemical ner tool also in other recent studies (; ;). tmchem model i trains a first-order crf using features from banner () plus further ones […]

PMCID: 4865327
PMID: 27173521
DOI: 10.1093/database/baw065

[…] systems is sufficiently diverse to significantly improve performance over any individual system, even when they use a similar approach., database url: http://www.ncbi.nlm.nih.gov/cbbresearch/lu/demo/tmtools/., while publications such as those found in the biomedical literature contain a significant amount of useful chemical information (), much of the useful information on medicinal chemistry […]

PMCID: 4074764
PMID: 24980129
DOI: 10.1093/database/bau053

[…] also evolve as a standard key file for concept recognition and annotation tasks as recommended in () and ()., the tmbioc toolkit is freely available (http://www.ncbi.nlm.nih.gov/cbbresearch/lu/demo/tmtools) and ready to be reused by a wider community of researchers in text mining, bioinformatics and biocuration. our tools, although developed in different programming languages such as java, perl […]


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tmTools institution(s)
National Center for Biotechnology Information (NCBI), National Library of Medicine (NLM), Bethesda, MD, USA
tmTools funding source(s)
This research was supported by the NIH Intramural Research Program, National Library of Medicine.

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