Survival Estimation and Bootstrap Program for Comparative Survival Study (CSS)
bootylator is an R package for estimating reach survivals and detection using a closed-form CJS methodology (ie. CJS model with time-variation). The package also contains functions to obtain confident intervals (CIs) by performing non-parametric bootstrapping, weighted or non-weighted. bootylator is developed mainly for CSS purposes, so it contains specific functionalities such as calculating SAR, TIR, C1, C0,... ect. However, users have the options to turn off CSS specific functionalities and utilize bootylator to only calculate survivals (and bootstrap CIs). bootylator package also contains a function to simulate fake capture-recapture data for study purposes.
bootylator can be installed on your computer directly from GitHub, and Hadley Wickham's devtools package can help you do that:
install.packages("devtools")
If you can't install devtools, it's probably that you need Rtools on your computer first (https://cran.r-project.org/bin/windows/Rtools/). After installing Rtools (if you haven't already), you can now install bootylator from GitHub:
devtools::install_github("boppingshoe/bootylator",
build_opts = c("--no-resave-data", "--no-manual"),
force = TRUE)
For further information on survival estimation and bootstrap methods for CSS:
McCann, J., B. Chockley, E. Cooper, B. Hsu, H. Schaller, S. Haeseker, R. Lessard, C. Petrosky, T. Copeland, E. Tinus, E. Van Dyke, A. Storch and D. Rawding. 2017. Comparative survival study of PIT-tagged spring/summer/fall Chinook, summer steelhead, and sockeye, 2017 Annual Report. Project No. 19960200.