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SML specifications

Information


Unique identifier OMICS_10333
Name SML
Alternative name Semantic Measures Library
Software type Framework/Library
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Programming languages Java
Computer skills Advanced
Version 0.9
Stability Stable
Maintained Yes

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Maintainer


  • person_outline Sébastien Harispe <>

Publications for Semantic Measures Library

SML in publications

 (5)
PMCID: 5865181
PMID: 29572502
DOI: 10.1038/s41598-018-23395-2

[…] a high ic. we calculated the ic for any term and any combination of gene ontology and gene ontology annotation file for each year from 2004 to 2015 using the using resnik ic implementation of the semantic measures library (sml). furthermore, we computed each gene’s mean ic as the mean ic of the go terms assigned to it., , electronic supplementary material , supplementary information […]

PMCID: 5428484
PMID: 28336965
DOI: 10.1038/s41598-017-00465-5

[…] resources– or as downloadable source code–. notably, the gossto framework allows calculation of several popular ss measures both as a standalone java program or through a web service, whereas the semantic measures library offers about 50 ss measures in a command line java toolkit. ultimately, mazandu et al. provide the most complete set of ss measures both for online calculation […]

PMCID: 5307803
PMID: 28193260
DOI: 10.1186/s13326-017-0119-z

[…] a corpus such as the number of annotations to an entity and the variance (or difference) in annotation size on the similarity measures using a large number of similarity measures implemented in the semantic measures library (sml) []. we find that different semantic similarity measures respond differently to annotation size, leading to higher or lower semantic similarity values with increasing […]

PMCID: 4387295
PMID: 25800813
DOI: 10.2196/jmir.3962

[…] the top 100 prescribed drugs in 2013 were retrieved from []., semantic similarity between adrs was computed using the human phenotype ontology (hpo) [], downloaded on may 30, 2014, using the semantic measures library v0.8 []., mturk is a platform for task creation, labor recruitment, and compensation. “requesters” create and publish “human intelligence tasks” (hits) and “workers” […]

PMCID: 4355138
PMID: 25763178
DOI: 10.1186/s13326-015-0001-9

[…] zebrafish phenotypes but no fly, worm, slime mold or drug effect phenotypes., in the future, we plan to incorporate different similarity measures. for example, we intend to experiment with using the semantic measures library (sml) [] and allow users to select multiple different similarity measures for their search. however, the use of a generic library written in java will require careful […]


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SML institution(s)
LGI2P/EMA Research Centre, Site EERIE, Parc Scientifique G Besse, Nîmes, France
SML funding source(s)
French Life Sciences and Healthcare Alliance (AVIESAN)

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