OWLTools statistics

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Associated diseases

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OWLTools specifications


Unique identifier OMICS_29539
Name OWLTools
Alternative names OWL2LS, OWL2 Life Sciences
Software type Application/Script
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Programming languages Java, Javascript, Perl, R, Shell (Bash)
License BSD 3-clause “New” or “Revised” License
Computer skills Advanced
Version 0.3.0
Stability Stable
Maintained Yes



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Additional information


OWLTools in publications

PMCID: 5546242
PMID: 28650483
DOI: 10.1038/ng.3901

[…] phenstat, http://goo.gl/tfba5k; mgi, http://www.informatics.jax.org/; mgi downloads, ftp://ftp.informatics.jax.org/pub/reports/; monarch initiative, https://monarchinitiative.org; owltools, https://github.com/owlcollab/owltools, all data presented here is openly available from the impc portal via our ftp site. we also provide regular data exports to the mgi group who provide […]

PMCID: 5414570
PMID: 28460034
DOI: 10.1093/gbe/evx070

[…] the a. thaliana annotation from tair (release 06/03/2016) and the p. pinaster annotation predicted by interproscan (v5.15-54). go terms for both species were mapped to go slim plant by map2slim in owltools., to remove paralogs and to increase sequence sampling for phylogenetic analysis, we used the following procedure to find reciprocal best hits to select phylogenetic markers. because hmmscan […]

PMCID: 5009323
PMID: 27589964
DOI: 10.1093/database/baw126

[…] the work described here used the core editor’s version of go, gene_ontology_write.obo, and imported external ontologies. ontologies can be converted between obo and owl formats using owltools (https://github.com/owlcollab/owltools). the obo format was used for human readability during the manual quality checking and for work in obo-edit and the owl format was used for work […]

PMCID: 4360730
PMID: 25776021
DOI: 10.1093/database/bav010

[…] set of go slim terms, a process called slimming, including the web-based amigo (http://amigo1.geneontology.org/cgi-bin/amigo/slimmer) and command-line owl tools (https://code.google.com/p/owltools/). however, a limitation of these tools is that they require a known set of annotations. to accommodate our use of multiple ontologies and slims, we chose to write our own code […]

PMCID: 4105709
PMID: 25052702
DOI: 10.1093/database/bau075

[…] as appropriate. reasoning is performed to check term relationships and intra-ontology cross-product term validity. releases are generated by the obo ontology release tool (http://code.google.com/p/owltools/wiki/oor tintro), and both obo and owl versions of the ontology are provided. the hermit reasoner is run as part of the release cycle, to verify that the ontology is formally coherent, […]

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