How to use this package (and why) | Introduction | Cellular Cooperation | Clonogenic Survival | Getting Started | Fast Analysis and Plotting of Results | Details for Focussed Analysis | Assess Cellular Cooperation | Determine Clonogenic Survival Fractions | Remark on Ignoring Cellular Cooperation | Determine Uncertainty of Survival Fractions | What's the problem with PE-based analysis? | (1) The non-cooperative case | (2) The cooperative case | Conclusion from (1) and (2)
Package: CFAcoop 1.0.0
CFAcoop: Colony Formation Assay: Taking into Account Cellular Cooperation
Cellular cooperation compromises the plating efficiency-based analysis of clonogenic survival data. This tool provides functions that enable a robust analysis of colony formation assay (CFA) data in presence or absence of cellular cooperation. The implemented method has been described in Brix et al. (2020). (Brix, N., Samaga, D., Hennel, R. et al. "The clonogenic assay: robustness of plating efficiency-based analysis is strongly compromised by cellular cooperation." Radiat Oncol 15, 248 (2020). <doi:10.1186/s13014-020-01697-y>) Power regression for parameter estimation, calculation of survival fractions, uncertainty analysis and plotting functions are provided.
Authors:
CFAcoop_1.0.0.tar.gz
CFAcoop_1.0.0.zip(r-4.7-any)CFAcoop_1.0.0.zip(r-4.6-any)CFAcoop_1.0.0.zip(r-4.5-any)
CFAcoop_1.0.0.tgz(r-4.6-any)CFAcoop_1.0.0.tgz(r-4.5-any)
CFAcoop_1.0.0.tar.gz(r-4.7-any)CFAcoop_1.0.0.tar.gz(r-4.6-any)
CFAcoop_1.0.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION
card.svg |card.png
CFAcoop/json (API)
| # Install 'CFAcoop' in R: |
| install.packages('CFAcoop', repos = c('https://zytohmgu.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/zytohmgu/cfacoop/issues
Datasets:
- CFAdata - Colony Formation Assay data on cellular cooperation
Last updated from:39bb6d0238. Checks:9 OK. Indexed: yes.
| Target | Result | Time | Files | Syslog |
|---|---|---|---|---|
| linux-devel | OK | 177 | ||
| source / vignettes | OK | 285 | ||
| linux-release | OK | 152 | ||
| macos-release | OK | 189 | ||
| macos-oldrel | OK | 206 | ||
| windows-devel | OK | 100 | ||
| windows-release | OK | 91 | ||
| windows-oldrel | OK | 80 | ||
| wasm-release | OK | 134 |
Exports:analyze_survivalcalculate_sfexport_sfplot_sfpwr_reg
Dependencies:backportsbase64encbslibcachemcheckmatecliclustercolorspacecpp11data.tabledigestevaluatefarverfastmapfontawesomeforeignFormulafsggplot2gluegridExtragtablehighrHmischtmlTablehtmltoolshtmlwidgetsisobandjquerylibjsonliteknitrlabelinglifecyclemagrittrmemoisemimennetR6rappdirsRColorBrewerrlangrmarkdownrpartrstudioapiS7sassscalesstringistringrtinytexvctrsviridisLitewithrxfunyaml
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| analyze_survival | analyze_survival |
| calculate_sf | calculate_sf |
| Colony Formation Assay data on cellular cooperation | CFAdata |
| export_sf | export_sf |
| plot_sf | plot_sf |
| pwr_reg | pwr_reg |