oir
Internal package to standardize preliminary data analysis, including common initial exploratory feedback
Science Score: 54.0%
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Low similarity (9.8%) to scientific vocabulary
Repository
Internal package to standardize preliminary data analysis, including common initial exploratory feedback
Basic Info
Statistics
- Stars: 0
- Watchers: 1
- Forks: 0
- Open Issues: 7
- Releases: 2
Metadata Files
README.md
oir
Internal package to standardize preliminary data analysis and integrate analytical feedback
Encodes common statistical decision trees, for a list of response variables for a project.
Cite via Zenodo DOI -- 
Requires input data tbl to be "nested" into 2 columns -- 1. "variable", a vector of response variable names, and 2. "varData", a list of
This can be done with the 2 code lines, acting on typically cleaned "wide" data (i.e. response variables as columns), with dataset's independent variable keys also as columns (e.g. "plot", treatment", etc.) --
e.g.
cleanData <- dplyr::tibble( "plot" = c(1, 2, 3), "treat" = c(1, 2, 3), "var1" = c(1, 2, 3), "var2" = c(1, 2, 3) #, [...] )
varTbl <- cleanData %>% tidyr::pivotlonger(namesto = "variable", values_to = "value") %>% purr::nest(cols = !c(-variable)).
then processed using --
statFormula <- value ~ [independent variable of interest] resultsTbl <- varTbl %>% oir::getStatsTbl(formula = statFormula)
Notes --
- best used with simple model formula, i.e. 1 independent variable in "statFormula" (at a time)
- the main oir::getStatsTbl() function has versions "1", "2", and "12" to run --
- linear regressions at plot-/group-level median centers ("1")
- non-linear version of regression (not nlme::) modifying independent variable with stats::poly(x, degree = 2, at finest row level ("2")
- the same non-linear version of regression, but using plot-/group-level centers ("12")
- more complex formulas (e.g. lmer) can be processed, but with limited insight into final appropriate p-values
- non-parametric option included as back-up test for usable p-value, but may offer slightly different inference/interpretation
Owner
- Name: Nicholas Medina, Ph.D.
- Login: nmedina17
- Kind: user
- Location: Chicago, IL, USA
- Repositories: 2
- Profile: https://github.com/nmedina17
Citation (CITATION.cff)
cff-version: 1.2.0 message: "If you use this software, please cite it as below." authors: - family-names: "Medina" given-names: "Nicholas" orcid: "https://orcid.org/0000-0001-5465-3988" title: "Code for: Automating statistical decision trees for data exploration and analysis revision workflow" version: 0.9.1 doi: 10.5281/zenodo.6800299 date-released: 2022-07-05 url: "https://github.com/nmedina17/oir"
GitHub Events
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Dependencies
- tidymodels * depends
- tidyverse * depends
- class * imports
- devtools * imports
- doParallel * imports
- dplyr * imports
- furrr * imports
- future * imports
- ggbeeswarm * imports
- gginnards * imports
- ggplot2 * imports
- ggpmisc * imports
- ggpubr * imports
- glue * imports
- here * imports
- lmerTest * imports
- magrittr * imports
- poweRlaw * imports
- rpart * imports
- rstatix * imports
- survival * imports
- tictoc * imports
- vegan * imports