README.md

In brsr/tsk: Trimmed Spearman-Karber Method

Notice

You probably want to use the ecotoxicology package instead of this.

tsk

Trimmed Spearman-Karber Method. A simple nonparametric method to determine median effective doses (LD50, etc.) from dose-response curves. This package is based on the paper by Hamilton et al (1977, 1978).

To install, just type this in your R session:

install.packages("devtools")
install.packages("isotone")
devtools::install_github(repo="brsr/tsk")

The package contains one function, tsk. Type ?tsk in your R terminal for detailed help on the function. An example:

> tsk( c(1, 10, 100, 1000), 20, c(0, 3, 17, 20) )
$use.log.doses
calculations done using the logs of the doses? 
                                          TRUE 
$trim
[1] 0
$was.smoothed
[1] FALSE
$LD50
[1] 31.62278
$gsd
geometric standard deviation of LD50 estimate 
                                     1.296928 
$conf.int
[1] 18.99717 52.63942
attr(,"conf.level")
[1] 0.95

This code was written several years ago. It runs and produces valid results, but may not be written in a contemporary R idiom.

This package was formerly located at https://r-forge.r-project.org/projects/tskarber/ . The R-forge project is being kept around to direct any existing users here. Any future updates will happen on Github.

Citations

Hamilton, M. A.; Russo, R. C.; Thurston, R. V. Trimmed Spearman-Karber Method for Estimating Median Lethal Concentrations in Toxicity Bioassays. Enviro. Sci. Tech. 1977, 11 (7), 714-719. http://dx.doi.org/10.1021/es60130a004

Ibid, 1978, 12 (4), 417. http://dx.doi.org/10.1021/es60140a017

brsr/tsk documentation built on Jan. 3, 2024, 6:51 p.m.