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Protocols

abcrf specifications

Information


Unique identifier OMICS_32545
Name abcrf
Alternative names Approximate Bayesian computation random forests, ABC-RF
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Programming languages R
License GNU General Public License version 3.0
Computer skills Advanced
Version 1.7.1
Stability Stable
Source code URL https://cran.r-project.org/src/contrib/abcrf_1.7.1.tar.gz
Maintained Yes

Versioning


No version available

Documentation


Maintainer


  • person_outline Jean-Michel Marin

Publication for Approximate Bayesian computation random forests

abcrf citations

 (6)
call_split

Genome diversity in the Neolithic Globular Amphorae culture and the spread of Indo European languages

2017
PMCID: 5719168
PMID: 29167359
DOI: 10.1098/rspb.2017.1540
call_split See protocol

[…] We compared different demographic models, each characterized by a different set of migration events, via approximate Bayesian computation via random forest (ABC-rf) (see electronic supplementary material for details and electronic supplementary material, table S8). In all cases, we assumed some level of genetic continuity across three geographical regions […]

call_split

Genetic footprint of population fragmentation and contemporary collapse in a freshwater cetacean

2017
Sci Rep
PMCID: 5663847
PMID: 29089536
DOI: 10.1038/s41598-017-14812-z
call_split See protocol

[…] on a logistic regression on 1% PODs producing SS values closest to the observed ones after a Linear Discriminant Analysis (ABC-LDA) as a pre-processing step and the recently introduced Random Forest (ABC-RF) procedure,; (3) evaluate the confidence in scenario choice by estimating the type-I and type-II error rates based on simulated PODs using the ABC-LDA, as well as the prior error rate from the […]

library_books

Deciphering the Routes of invasion of Drosophila suzukii by Means of ABC Random Forest

2017
Mol Biol Evol
PMCID: 5400373
PMID: 28122970
DOI: 10.1093/molbev/msx050

[…] To the best of our knowledge, the present study is the first to use the recently developed ABC-RF method () to test competing models characterized by different levels of complexity. To compare ABC-RF to a more standard ABC method, we carried out a subset of model choice analyses using both […]

library_books

“The 24th Conference” of the Groupement des Pharmacochimistes de l’Arc Atlantique (GP2A)

2017
PMCID: 5374421
PMID: 28134835
DOI: 10.3390/ph10010017

[…] s and young scientists, two awards were attributed for the best oral flash presentation and for the best poster presentation. The first award was attributed to Mary McKee (Department of Chemistry and ABCRF, University College Cork, Western Road, Cork, Ireland) for her presentation entitled “Synthesis and Evaluation of Novel Benzofuran Conjugates as Potential Anticancer Agents”. Alexia Ville (SONAS […]

library_books

First International Electronic Conference on Medicinal Chemistry (ECMC 1)

2016
PMCID: 4812378
DOI: 10.3390/ph9010014

[…] Hannah J. Winfield, Kevin D. O'Shea and Florence O. McCarthy *Department of Chemistry and ABCRF, University College Cork, Western Road, Cork, Ireland* Correspondence: [email protected] causes about 13% of all human deaths and at least one fifth of all deaths in Europe and North Ameri […]

library_books

1st Joint European Conference on Therapeutic Targets and Medicinal Chemistry (TTMC 2015)

2015
PMCID: 4812365
PMID: 26712767
DOI: 10.3390/ph9010001

[…] Kevin D. O’Shea * and Florence O. McCarthyDepartment of Chemistry and ABCRF, University College Cork, Western Road, Cork, Ireland* Author to whom correspondence should be addressed; E-Mail: [email protected] activity of protein kinases is associated with […]


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abcrf institution(s)
IMAG, Univ Montpellier, CNRS, Montpellier, France; IBC, Univ Montpellier, CNRS, Montpellier, France; Institut de Mathématiques de Marseille, Aix-Marseille Université, Marseille, France; Université Paris Dauphine, PSL Research University, Paris, France; Department of Statistics, University of Warwick, Coventry, UK; CBGP, INRA, CIRAD, IRD, Montpellier SupAgro, Université Montpellier, Montpellier, France
abcrf funding source(s)
Supported by the National Research Fund ANR (France) through the European Union program ERA-Net BiodivERsA (project EXOTIC), the project ANR-16-CE02-0015-01 (SWING), the INRA scientific department SPE (AAP-SPE 2016), an IUF 2016-2021 senior grant, and by Labex NUMEV (NUMEV, ANR10-LABX-20).

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