neotomaTargets is a template for reproducible research using data from
the Neotoma database using the
targets pipeline.
It includes sample code for downloading data from Neotoma, cleaning the
data, analysing the data, and writing a manuscript with R markdown, all
in a targets pipeline.
The aim is that you can make a copy of the template and modify it to write your own reproducible manuscripts.
neotomaTargets is a template
repository.
Click on the 🟩 Use this template 🟩 button
and follow the instructions to make a copy of this repo into your own
account.
neotomaTargets depends on the neotoma and targets packages and
some others listed in the DESCRIPTION file. To install these packages,
use
devtools::install_deps()To run all the analyses and produce the manuscript, open “make.R” and
run tar_make(). This finds the target plan in "_targets.R" (this file
must have this name and be in the working directory), which is assembled
from sub-plans in "R/*-plan.R" files. If you modify any of the
sub-plans and re-run tar_make() only targets which have been outdated
will be re-run.