Package: ceas 1.3.0
Rachel House
ceas: Cellular Energetics Analysis Software
Measuring cellular energetics is essential to understanding a matrix’s (e.g. cell, tissue or biofluid) metabolic state. The Agilent Seahorse machine is a common method to measure real-time cellular energetics, but existing analysis tools are highly manual or lack functionality. The Cellular Energetics Analysis Software (ceas) R package fills this analytical gap by providing modular and automated Seahorse data analysis and visualization using the methods described by Mookerjee et al. (2017) <doi:10.1074/jbc.m116.774471>.
Authors:
ceas_1.3.0.tar.gz
ceas_1.3.0.zip(r-4.5)ceas_1.3.0.zip(r-4.4)ceas_1.3.0.zip(r-4.3)
ceas_1.3.0.tgz(r-4.5-any)ceas_1.3.0.tgz(r-4.4-any)ceas_1.3.0.tgz(r-4.3-any)
ceas_1.3.0.tar.gz(r-4.5-noble)ceas_1.3.0.tar.gz(r-4.4-noble)
ceas_1.3.0.tgz(r-4.4-emscripten)ceas_1.3.0.tgz(r-4.3-emscripten)
ceas.pdf |ceas.html✨
ceas/json (API)
NEWS
| # Install 'ceas' in R: |
| install.packages('ceas', repos = c('https://jamespeapen.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/jamespeapen/ceas/issues
Pkgdown site:https://jamespeapen.github.io
Last updated 2 months agofrom:f638894b1d. Checks:5 OK, 3 NOTE. Indexed: yes.
| Target | Result | Latest binary |
|---|---|---|
| Doc / Vignettes | OK | Feb 20 2025 |
| R-4.5-win | NOTE | Feb 20 2025 |
| R-4.5-mac | NOTE | Feb 20 2025 |
| R-4.5-linux | NOTE | Feb 20 2025 |
| R-4.4-win | OK | Feb 20 2025 |
| R-4.4-mac | OK | Feb 20 2025 |
| R-4.3-win | OK | Feb 20 2025 |
| R-4.3-mac | OK | Feb 20 2025 |
Exports:atp_plotbioscope_plotenergetics_lme_summaryenergetics_ols_summaryfit_lmeget_energeticsget_energetics_summaryget_rate_summarymake_bioscope_plotnormalizepartition_datarate_plotrates_lme_summaryread_data
Dependencies:bootcellrangerclicolorspacecpp11crayondata.tablefansifarverggplot2gluegtablehmsisobandlabelinglatticelifecyclelme4magrittrMASSMatrixmgcvminqamunsellnlmenloptrpillarpkgconfigprettyunitsprogressR6rbibutilsRColorBrewerRcppRcppEigenRdpackreadxlreformulasrematchrlangscalestibbleutf8vctrsviridisLitewithr
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| ATP Plot | atp_plot |
| Bioenergetic Scope Plot | bioscope_plot |
| Get mean and confidence intervals from energetics mixed-effects models | energetics_lme_summary |
| Get ordinary least squares mean and confidence intervals from energetics | energetics_ols_summary |
| Calculate ATP Production from OXPHOS and Glycolysis | get_energetics |
| Calculate ATP Production Mean and Standard Deviation | get_energetics_summary |
| Rates summary | get_rate_summary |
| Bioenergetic Scope Plot Shortcut | make_bioscope_plot |
| Normalize Seahorse data | normalize |
| Organize Seahorse Data | partition_data |
| Rate plot | rate_plot |
| Read Seahorse Wave Excel File | read_data |