Package: nncc 2.0.0

nncc: Nearest Neighbors Matching of Case-Control Data

Provides nearest-neighbors matching and analysis of case-control data. Cui, Z., Marder, E. P., Click, E. S., Hoekstra, R. M., & Bruce, B. B. (2022) <doi:10.1097/EDE.0000000000001504>.

Authors:Beau Bruce [aut, cre], Zhaohui Cui [aut]

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nncc.pdf |nncc.html✨
nncc/json (API)
NEWS

# Install 'nncc' in R:

install.packages('nncc', repos = c('https://bbbruce.r-universe.dev', 'https://cloud.r-project.org'))

Datasets:

anifood - Case-control data
excl_vars - Variables excluded from matching
sex2 - Urinary Tract Infection in American College Students
sexagg - Urinary Tract Infection in American College Students

On CRAN:

This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.

13 exports 0.09 score 45 dependencies 3 scripts 288 downloads

Last updated 8 months agofrom:51eede2692. Checks:OK: 7. Indexed: yes.

Target	Result	Date
Doc / Vignettes	OK	Aug 24 2024
R-4.5-win	OK	Aug 24 2024
R-4.5-linux	OK	Aug 24 2024
R-4.4-win	OK	Aug 24 2024
R-4.4-mac	OK	Aug 24 2024
R-4.3-win	OK	Aug 24 2024
R-4.3-mac	OK	Aug 24 2024

Exports:cacheit distance_density_plot finalize_data get_paf get_threshold make_analysis_set make_knn_strata original_compare_plot plot_results test_mh threshold_model_plot unique_controls write_strata_or_output

Dependencies:cli cluster codetools colorspace cpp11 digest dplyr fansi farver furrr future generics ggplot2 globals glue gtable igraph isoband labeling lattice lifecycle listenv magrittr MASS Matrix mgcv munsell nlme parallelly pillar pkgconfig purrr R6 RColorBrewer rlang scales stringi stringr tibble tidyr tidyselect utf8 vctrs viridisLite withr

nncc: nearest-neighbors matching for case-control data

Rendered fromnncc.Rmdusingknitr::rmarkdownon Aug 24 2024.

Last update: 2024-01-12
Started: 2022-08-30

Citation

Readme and manuals

Help Manual

Help page	Topics
case-control data	anifood
Function to cache long operations	cacheit
Calculate the pooled strata OR	calc_strata_or
Distance density plots comparing closest to random choices	distance_density_plot
Variables excluded from matching	excl_vars
Final cleaning of the matched dataset(s)	finalize_data
Fix the strata so they all have at least one case and control	fix_df
Calculate population attributable fraction using odds ratio	get_paf
Identify the right threshold	get_threshold
Make analysis set	make_analysis_set
Make analysis datasets	make_analysis_sets
Make case-control strata using k nearest neighbors (knn)	make_knn_strata
nncc: nearest-neighbors matching for case-control data	case_control matching nearest_neighbors nncc
Compare the original strata's distances to the knn version	original_compare_plot
Plot the OR results	plot_results
Urinary Tract Infection in American College Students	sex2
Urinary Tract Infection in American College Students	sexagg
Calculate odds ratios	test_mh
Show the prediction of the logistic regression model	threshold_model_plot
Ensures controls are unique to avoid possible pseudoreplication issues	unique_controls
Format strata output into CSV	write_strata_or_output