Ecosyste.ms: Papers

An open API service providing mapping between scientific papers and software projects that are mentioned in them.
All mentions data is based on the CZI Software Mentions dataset.

Projects: cran: AlphaSimR

https://packages.ecosyste.ms/registries/cran.r-project.org/packages/AlphaSimR

Breeding Program Simulations
21 versions
Latest release: 11 months ago
2 dependent packages
667 downloads last month

Papers Mentioning AlphaSimR 17

10.1371/journal.pgen.1009652

Powerful detection of polygenic selection and evidence of environmental adaptation in US beef cattle
Cited by: 22
Author(s): Troy N. Rowan, Harly J. Durbin, Christopher M. Seabury, Robert D. Schnabel, Jared E. Decker
Software Mentions: 6
Published: about 3 years ago

10.1186/s12859-020-03804-y

simplePHENOTYPES: SIMulation of pleiotropic, linked and epistatic phenotypes
Cited by: 7
Author(s): Samuel B. Fernandes, Alexander E. Lipka
Software Mentions: 5
Published: almost 4 years ago

10.1093/g3journal/jkaa017

AlphaSimR: an R package for breeding program simulations
Cited by: 88
Author(s): R. Chris Gaynor, Gregor Gorjanc, John M. Hickey
Software Mentions: 5
Published: almost 4 years ago

10.1186/s12711-020-0530-2

SeqBreed: a python tool to evaluate genomic prediction in complex scenarios
Cited by: 7
Author(s): Miguel Pérez‐Enciso, Lino C. Ramírez-Ayala, Laura M. Zingaretti
Software Mentions: 4
Published: over 4 years ago

10.1038/s42003-021-01840-9

Overcoming barriers to the registration of new plant varieties under the DUS system
Cited by: 9
Author(s): Chin Jian Yang, Joanne Russell, Luke Ramsay, William Thomas, W. Powell, Ian Mackay
Software Mentions: 4
Published: over 3 years ago

10.1186/s12711-021-00643-0

Genetic variation in recombination rate in the pig
Cited by: 15
Author(s): Martin Johnsson, Andrew Whalen, Roger Ros‐Freixedes, Gregor Gorjanc, Ching-Yi Chen, William Herring, Dirk-Jan de Koning, John M. Hickey
Software Mentions: 4
Published: about 3 years ago

10.1093/bioinformatics/btaa499

AlphaFamImpute: high-accuracy imputation in full-sib families from genotype-by-sequencing data
Cited by: 10
Author(s): Andrew Whalen, Gregor Gorjanc, John M. Hickey
Software Mentions: 4
Published: over 4 years ago

10.1038/s41598-020-77069-z

Genomic selection for heterobothriosis resistance concurrent with body size in the tiger pufferfish, Takifugu rubripes
Cited by: 10
Author(s): Zijie Lin, S. Hosoya, Mana Sato, Naoki Mizuno, Yuki Kobayashi, Takuya Itou, Kiyoshi Kikuchi
Software Mentions: 3
Published: almost 4 years ago

10.1186/s12711-019-0456-8

Removal of alleles by genome editing (RAGE) against deleterious load
Cited by: 45
Author(s): Martin Johnsson, R. Chris Gaynor, Janez Jenko, Gregor Gorjanc, Dirk-Jan de Koning, John M. Hickey
Software Mentions: 3
Published: over 5 years ago

10.1534/g3.118.200932

Optimizing Genomic Selection for a Sorghum Breeding Program in Haiti: A Simulation Study
Cited by: 43
Author(s): Kebede T. Muleta, Gaël Pressoir, Geoffrey P. Morris
Software Mentions: 2
Published: over 5 years ago

10.1371/journal.pone.0235554

Long-term comparison between index selection and optimal independent culling in plant breeding programs with genomic prediction
Cited by: 9
Author(s): Lorena Batista, R. Chris Gaynor, Gabriel Rodrigues Alves Margarido, T. J. Byrne, P. R. Amer, Gregor Gorjanc, John M. Hickey
Software Mentions: 2
Published: over 3 years ago

10.1186/s12711-021-00600-x

AlphaPart—R implementation of the method for partitioning genetic trends
Cited by: 9
Author(s): Jana Obšteter, J. W. Holl, John M. Hickey, Gregor Gorjanc
Software Mentions: 2
Published: over 3 years ago

10.1186/s12711-020-00588-w

Spatial modelling improves genetic evaluation in smallholder breeding programs
Cited by: 13
Author(s): Maria Lie Selle, Ingelin Steinsland, Owen Powell, John M. Hickey, Gregor Gorjanc
Software Mentions: 1
Published: almost 4 years ago

10.3389/fpls.2021.605172

Modeling Illustrates That Genomic Selection Provides New Opportunities for Intercrop Breeding
Cited by: 19
Author(s): Jon Bančič, Christian R. Werner, R. Chris Gaynor, Gregor Gorjanc, Damaris Achieng Odeny, Henry Ojulong, Ian K. Dawson, SP Hoad, John M. Hickey
Software Mentions: 1
Published: over 3 years ago

10.1002/csc2.20409

Phasing and imputation of single nucleotide polymorphism data of missing parents of biparental plant populations
Cited by: 2
Author(s): Serap Gonen, Valentin Wimmer, R. Chris Gaynor, Ed Byrne, Gregor Gorjanc, John M. Hickey
Software Mentions: 1
Published: over 3 years ago

10.1038/s41598-020-61031-0

In silico simulation of future hybrid performance to evaluate heterotic pool formation in a self-pollinating crop
Cited by: 5
Author(s): Wallace Cowling, R. Chris Gaynor, Roberto Antolín, Gregor Gorjanc, Stefan McKinnon Edwards, Owen Powell, John M. Hickey
Software Mentions: 1
Published: over 4 years ago

10.3389/fgene.2021.637133

Impact of Genomic Prediction Model, Selection Intensity, and Breeding Strategy on the Long-Term Genetic Gain and Genetic Erosion in Soybean Breeding
Cited by: 6
Author(s): Éder David Borges da Silva, Alencar Xavier, Marcos Ventura Faria
Software Mentions: 1
Published: about 3 years ago