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openModeller specifications

Information


Unique identifier OMICS_28000
Name openModeller
Software type Application/Script
Interface Graphical user interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Computer skills Medium
Version 1.5.0
Stability Stable
Maintained Yes

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Versioning


No version available

Maintainer


  • person_outline Renato De Giovanni

Publication for openModeller

openModeller citations

 (9)
library_books

Species specific ecological niche modelling predicts different range contractions for Lutzomyia intermedia and a related vector of Leishmania braziliensis following climate change in South America

2017
PMCID: 5366140
PMID: 28340594
DOI: 10.1186/s13071-017-2093-9

[…] Models were run in R package dismo [] under default settings, except for GARP models that were run in OpenModeller (version 1.1.0), using its 'Best Subsets' implementation []. For every modelling algorithm, 10-fold cross-validation was applied, to use the whole set of presence/pseudo-absence records f […]

library_books

Glacial refugia and the prediction of future habitat coverage of the South American lichen species Ochrolechia austroamericana

2016
Sci Rep
PMCID: 5144090
PMID: 27929090
DOI: 10.1038/srep38779

[…] on dataset that received the highest AUC scores using GARP algorithm applying the best subsets were conducted to verify MaxEnt models for the present and future time. These models were created using openModeller.The niche overlap tests implemented in ENMTools application were used to evaluate the overlap of the potential ranges modeled for LGM and present time as well as to estimate differences b […]

call_split

Introducing BioSARN – an ecological niche model refinement tool

2016
Ecol Evol
PMCID: 4983593
PMID: 27547356
DOI: 10.1002/ece3.2331
call_split See protocol

[…] st be in ASCII format and except the LCM must have identical range and spatial resolution. Use of the ASCII file format renders BioSARN compatible with most commonly used GIS (e.g., ArcGIS, DIVA‐GIS, OpenModeller, and Global Mapper). Environmental suitability thresholds are specified on the “settings” screen. The “RUN” button is highlighted when BioSARN detects a runnable scenario and then inacces […]

call_split

Ecological Niche Modelling Predicts Southward Expansion of Lutzomyia (Nyssomyia) flaviscutellata (Diptera: Psychodidae: Phlebotominae), Vector of Leishmania (Leishmania) amazonensis in South America, under Climate Change

2015
PLoS One
PMCID: 4664266
PMID: 26619186
DOI: 10.1371/journal.pone.0143282
call_split See protocol

[…] sts models used the full set of 199 presence and 86 absence records.Most models were developed using the package dismo (version 1.0–5 []) in the software R (version 3.1.1 []). GARP models were run in OpenModeller (version 1.1.0 []), using its “Best Subsets” new implementation []. For every model, we used 10-fold cross validation in order to use the whole set of presence/absence points for both mod […]

library_books

Arbor: Comparative Analysis Workflows for the Tree of Life

2013
PLoS Curr
PMCID: 3690915
PMID: 23811960
DOI: 10.1371/currents.tol.099161de5eabdee073fd3d21a44518dc

[…] ctively curate occurrence data, selecting data points that are relevant for the analysis. A distribution model for each of these species using the curated occurrence data will be constructed using an openModeller module (based on openmodeller.sourceforge.net) and LifeMapper (lifemapper.org), an existing set of web services and tools. openModeller will use the integration capabilities of Arbor to i […]

library_books

Past Climate Change and Plant Evolution in Western North America: A Case Study in Rosaceae

2012
PLoS One
PMCID: 3517582
PMID: 23236369
DOI: 10.1371/journal.pone.0050358

[…] Locality data together with the four selected climate variables () were used to define the climate preferences for each of the 38 ivesioid species, using the Envelope Score algorithm implemented in OpenModeller v.1.1.0 (openmodeller.sourceforge.net). The Envelope score is a modified version of the Bioclimatic Envelope Algorithm (Bioclim) that uses the observed maximum and minimum values in each […]

Citations

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openModeller institution(s)
Centro de Referência em Informação Ambiental, Campinas, Brazil; Lanseria, Gauteng, South Africa; Malcolm and Carolyn Wiener Laboratory for Aegean and Near Eastern Dendrochronology, Cornell University, Ithaca, NY, USA
openModeller funding source(s)
Supported by the FAPESP.

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