Package: clockSim 0.0.0.9001

clockSim: Simulation of the Circadian Clock Gene Network

A preconfigured simulation workflow for the circadian clock gene network.

Authors:Ye Yuan [aut, cre]

clockSim_0.0.0.9001.tar.gz
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clockSim.pdf |clockSim.html✨
clockSim/json (API)

# Install 'clockSim' in R:

install.packages('clockSim', repos = c('https://yeyuan98.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/yeyuan98/clocksim/issues

On CRAN:

2.00 score 1 scripts 5 exports 80 dependencies

Last updated 15 hours agofrom:51cb9a2b31. Checks:7 OK, 4 NOTE. Indexed: yes.

Target	Result	Latest binary
Doc / Vignettes	OK	Feb 20 2025
R-4.5-win-x86_64	NOTE	Feb 20 2025
R-4.5-mac-x86_64	NOTE	Feb 20 2025
R-4.5-mac-aarch64	NOTE	Feb 20 2025
R-4.5-linux-x86_64	NOTE	Feb 20 2025
R-4.4-win-x86_64	OK	Feb 20 2025
R-4.4-mac-x86_64	OK	Feb 20 2025
R-4.4-mac-aarch64	OK	Feb 20 2025
R-4.3-win-x86_64	OK	Feb 20 2025
R-4.3-mac-x86_64	OK	Feb 20 2025
R-4.3-mac-aarch64	OK	Feb 20 2025

Exports:compute_period getOdinGen plot_phase plot_timeSeries run_eta

Dependencies:askpass base64enc bench bslib cachem cinterpolate cli colorspace cpp11 crosstalk curl data.table dde deSolve digest dplyr evaluate fansi farver fastmap fontawesome fs generics ggplot2 glue gridExtra gtable highr htmltools htmlwidgets httr isoband jquerylib jsonlite knitr labeling later lattice lazyeval lifecycle lomb magrittr MASS Matrix memoise mgcv mime munsell nlme odin openssl pillar pkgconfig plotly pracma profmem promises purrr R6 rappdirs RColorBrewer Rcpp ring rlang rmarkdown sass scales stringi stringr sys tibble tidyr tidyselect tinytex utf8 vctrs viridisLite withr xfun yaml

Simulation of the circadian clock

Ye Yuan

Rendered fromclock-sim.Rmdusingknitr::rmarkdownon Feb 20 2025.

Last update: 2025-02-20
Started: 2025-02-19

Citation

Development and contributors

Readme and manuals

Help Manual

Help page	Topics
clockSim: Simulation of the Circadian Clock Gene Network.	clockSim
Compute periodicity of time series	compute_period
Get all clock model Odin generator objects	getOdinGen
2-D phase potrait plot	plot_phase
Time series plot (multifaceted)	plot_timeSeries
Run time estimate for an Odin model run.	run_eta

Usage by other packages (reverse dependencies)