Package: TSDFGS 2.4.2

Jen-Hsiang Ou

TSDFGS: Training Set Determination For Genomic Selection

We propose an optimality criterion to determine the required training set, r-score, which is derived directly from Pearson's correlation between the genomic estimated breeding values and phenotypic values of the test set <doi:10.1007/s00122-019-03387-0>. This package provides two main functions to determine a good training set and its size.

Authors:Jen-Hsiang Ou [aut, cre], Po-Ya Wu [aut], Chen-Tuo Liao [aut, ths]

TSDFGS_2.4.2.tar.gz
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TSDFGS.pdf |TSDFGS.html✨
TSDFGS/json (API)

# Install 'TSDFGS' in R:

install.packages('TSDFGS', repos = c('https://oumarkme.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/oumarkme/tsdfgs/issues

Pkgdown site:https://oumarkme.github.io

Uses libs:

c++– GNU Standard C++ Library v3

Datasets:

geno - Genotype information
subpop - Sub-population information

On CRAN:

genomic-prediction genomic-selection cpp

3.70 score 5 stars 7 scripts 164 downloads 2 mentions 7 exports 36 dependencies

Last updated 1 years agofrom:a802b81201. Checks:11 OK. Indexed: yes.

Target	Result	Latest binary
Doc / Vignettes	OK	Feb 08 2025
R-4.5-win-x86_64	OK	Feb 08 2025
R-4.5-mac-x86_64	OK	Feb 08 2025
R-4.5-mac-aarch64	OK	Feb 08 2025
R-4.5-linux-x86_64	OK	Feb 08 2025
R-4.4-win-x86_64	OK	Feb 08 2025
R-4.4-mac-x86_64	OK	Feb 08 2025
R-4.4-mac-aarch64	OK	Feb 08 2025
R-4.3-win-x86_64	OK	Jan 09 2025
R-4.3-mac-x86_64	OK	Feb 08 2025
R-4.3-mac-aarch64	OK	Feb 08 2025

Exports:cd_score FGCM nt2r optTrain pev_score r_score SSDFGS

Dependencies:cli colorspace dplyr fansi farver generics ggplot2 glue gtable isoband labeling latex2exp lattice lifecycle magrittr MASS Matrix mgcv munsell nlme pillar pkgconfig R6 RColorBrewer Rcpp RcppEigen rlang scales stringi stringr tibble tidyselect utf8 vctrs viridisLite withr

Citation

Development and contributors

Readme and manuals

Help Manual

Help page	Topics
CD-score	cd_score
Fit logistic growth curve model	FGCM
Genotype information	geno
Simulate r-scores of each training set size	nt2r
Optimal training set determination	optTrain
PEV score	pev_score
r-score	r_score
Sample size determination for genomic selection	SSDFGS
Sub-population information	subpop
TSDFGS	TSDFGS