Package: gpmap 0.1.2
gpmap: Analysing and Plotting Genotype-Phenotype Maps
Tools for studying genotype-phenotype maps for bi-allelic loci underlying quantitative phenotypes. The 0.1 version is released in connection with the publication of Gjuvsland et al (2013) and implements basic line plots and the monotonicity measures for GP maps presented in the paper. Reference: Gjuvsland AB, Wang Y, Plahte E and Omholt SW (2013) Monotonicity is a key feature of genotype-phenotype maps. Frontier in Genetics 4:216 <doi:10.3389/fgene.2013.00216>.
Authors:
gpmap_0.1.2.tar.gz
gpmap_0.1.2.zip(r-4.5)gpmap_0.1.2.zip(r-4.4)gpmap_0.1.2.zip(r-4.3)
gpmap_0.1.2.tgz(r-4.4-any)gpmap_0.1.2.tgz(r-4.3-any)
gpmap_0.1.2.tar.gz(r-4.5-noble)gpmap_0.1.2.tar.gz(r-4.4-noble)
gpmap_0.1.2.tgz(r-4.4-emscripten)gpmap_0.1.2.tgz(r-4.3-emscripten)
gpmap.pdf |gpmap.html✨
gpmap/json (API)
| # Install 'gpmap' in R: |
| install.packages('gpmap', repos = c('https://argju.r-universe.dev', 'https://cloud.r-project.org')) |
This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.
Last updated 4 years agofrom:ea018197e2. Checks:OK: 7. Indexed: yes.
| Target | Result | Date |
|---|---|---|
| Doc / Vignettes | OK | Oct 30 2024 |
| R-4.5-win | OK | Oct 30 2024 |
| R-4.5-linux | OK | Oct 30 2024 |
| R-4.4-win | OK | Oct 30 2024 |
| R-4.4-mac | OK | Oct 30 2024 |
| R-4.3-win | OK | Oct 30 2024 |
| R-4.3-mac | OK | Oct 30 2024 |
Exports:decompose_monotonedecompose_monotone_singledegree_of_monotonicitydegree_of_monotonicity_singleenumerate_genotypesgenerate_gpmapmonotone_regressionpartial_genotype_order
Dependencies:clicodetoolscolorspacefansifarverforeachggplot2gluegtableisobandisotoneiteratorslabelinglatticelifecyclemagrittrMASSMatrixmgcvmunsellnlmennlspillarpkgconfigplyrR6RColorBrewerRcpprlangscalestibbleutf8vctrsviridisLitewithr
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Tools for analysing and plotting genotype-phenotype maps | gpmap-package |
| Decompose genotype-phenotype map(s) using monotone regression | decompose_monotone decompose_monotone_single |
| Degree of monotonicity of GP map | degree_of_monotonicity degree_of_monotonicity_single |
| Function for enumerating genotypes for N biallelic loci | enumerate_genotypes |
| Function for creating genotype-phenotype (GP) maps | generate_gpmap gpmap |
| Dataset containing example GP maps | A AA AD D DA DD mouseweight |
| Perform monotone regression on a genotype-phenotype (GP) map | monotone_regression |
| Generate partial ordering of genotype space based from allele content of genotypes | partial_genotype_order |
| Functions for creating lineplots of genotype-phenotype (GP) maps | plot.gpmap plot.gpmap.decomp.mono |
| Print function for 'gpmap' objects | print.gpmap |
