Package: loewesadditivity 0.1.0
loewesadditivity: Loewe's Additivity
Estimate model parameters to determine whether two compounds have synergy, antagonism, or Loewe's Additivity.
Authors:
loewesadditivity_0.1.0.tar.gz
loewesadditivity_0.1.0.zip(r-4.5)loewesadditivity_0.1.0.zip(r-4.4)loewesadditivity_0.1.0.zip(r-4.3)
loewesadditivity_0.1.0.tgz(r-4.4-any)loewesadditivity_0.1.0.tgz(r-4.3-any)
loewesadditivity_0.1.0.tar.gz(r-4.5-noble)loewesadditivity_0.1.0.tar.gz(r-4.4-noble)
loewesadditivity_0.1.0.tgz(r-4.4-emscripten)loewesadditivity_0.1.0.tgz(r-4.3-emscripten)
loewesadditivity.pdf |loewesadditivity.html✨
loewesadditivity/json (API)
| # Install 'loewesadditivity' in R: |
| install.packages('loewesadditivity', repos = c('https://skgallagher.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/skgallagher/loewesadditivity/issues
- cyrpa_ripr - CyRPA and RIPR
- rh5_ama1ron2 - RH5 and AMA1RON2
- rh5_rh4 - RH5 and RH4
Last updated 3 years agofrom:1b62f3e6a4. Checks:OK: 3 NOTE: 4. Indexed: yes.
| Target | Result | Date |
|---|---|---|
| Doc / Vignettes | OK | Sep 11 2024 |
| R-4.5-win | NOTE | Sep 11 2024 |
| R-4.5-linux | NOTE | Sep 11 2024 |
| R-4.4-win | NOTE | Sep 11 2024 |
| R-4.4-mac | NOTE | Sep 11 2024 |
| R-4.3-win | OK | Sep 11 2024 |
| R-4.3-mac | OK | Sep 11 2024 |
Exports:%>%base_GIAcalc_Scalc_S_basedesign_experimentestimate_GIAestimate_paramsfortify_gia_datamake_gridplot_curvesplot_isobologramplot_surfacesimulate_coverage
Dependencies:backportscachemcheckmateclassclassIntclicolorspacecpp11data.tableDBIdigestdplyre1071fansifarverfastmapFormulaformula.toolsgenericsggplot2gluegridExtragtableisobandKernSmoothlabelinglatticelifecyclelubridatemagrittrMASSMatrixmemoisemetRmgcvmunsellnlmeoperator.toolspillarpkgconfigplyrproxypurrrR6RColorBrewerRcpprlangrootSolves2scalessfstringistringrtibbletidyrtidyselecttimechangeunitsutf8vctrsviridisviridisLitewithrwk
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Estimate GIA according to the base model | base_GIA |
| Helper function for the bootstrap results | boot_GIA |
| Calculate S generally | calc_S |
| Calculate S from given tau_1 for base model | calc_S_base |
| CyRPA and RIPR | cyrpa_ripr |
| Helper function to generate code to run an experiment | design_experiment |
| Function to design an experimental grid of combinations | design_grid |
| Take in dose A and dose B combinations and estimate GIA | estimate_GIA |
| Estimate the parameters for a given data set and model | estimate_params |
| Put GIA measurements into a dplyr format | fortify_gia_data |
| Helper function to get the ED50 line | get_ed_line |
| Make a grid of points | make_grid |
| Plot the surface and observations | plot_curves |
| Plot the estimated isobologram | plot_isobologram |
| Plot the surface and observations | plot_surface |
| RH5 and AMA1RON2 | rh5_ama1ron2 |
| RH5 and RH4 | rh5_rh4 |
| Simulate a GIA model with an assumed error structure | simulate_coverage |
| Calculate the Sum of Squared Error | SSE_GIA |
