kstools

Clinical and data science utilities for R.

Current package version is maintained in DESCRIPTION; detailed release history is in NEWS.md.

Repository: github.com/crow16384/kstools

Installation

From a local checkout (package root):

install.packages(".", repos = NULL, type = "source")

From GitHub:

# remotes::install_github("crow16384/kstools")
install.packages("kstools", repos = c('https://crow16384.r-universe.dev', 'https://cloud.r-project.org'))

Key Features

Descriptive Statistics

• ks_summary() grouped summary table with optional custom statistics (extras)
• ks_median_ci(), ks_geom_mean(), ks_q1(), ks_q3(), ks_cv(), ks_z_score(), ks_p_norm(), ks_n_pct()
• ks_get_numdec() for decimal precision tracking

Inference and Comparative Methods

• ks_mianalyze() / mianalyze() Rubin pooling across multiple imputations (SAS MIANALYZE analogue; see vignette("mianalyze"))
• ks_roc() correlated ROC AUC comparison using Mann-Whitney components and contrast tests
• ks_eairdiff_mn() / ks_eairdiff_strata_mn() incidence-rate difference CIs
• ks_newcombe_hs() / ks_newcombe_hs_strata() difference-in-proportion CIs
• ks_auc() linear/log-linear trapezoidal AUC

SDTM / ADaM Helpers

• ks_dtc2dtn() DTC to Date
• ks_supp_consistency_check() and ks_supp_merge() for SUPP domains
• ks_xpt_content(), ks_extract_single_xpt(), ks_batch_load_from_single_xpt() for multi-member XPT workflows
• ks_desc_coded() clinical coded-summary table builder

Data Loading and Export

• ks_get_data() and read.csv3()
• ks_batch_load() and ks_batch_load_xlsx()

Utility Functions

• ks_swap_cols(), ks_del_tmp(), ks_aligndec(), ks_sum_na(), %+na%
• ks_swoe(), ks_simulate_ar1(), ks_current_filename(), ks_code_to_fmt(), ks_get_labels()
• ks_williams() randomized Williams design and schedule generation

Examples

• Runnable per-function scripts are in inst/examples.
• Run all examples in a defined sequence:

source("inst/examples/run_all_examples.R")

Documentation Workflow

From the package root:

# 1) Regenerate Rd files and NAMESPACE from roxygen comments
roxygen2::roxygenise()

# 2) Build vignettes
devtools::build_vignettes()

# 3) Build package site (pkgdown)
pkgdown::build_site()

The pkgdown configuration is in _pkgdown.yml, and vignettes are in vignettes.

Dependencies

Primary imports and suggested packages are declared in DESCRIPTION.

License

GNU General Public License v3.0 (GPL-3).

See DESCRIPTION and the GPL-3.0 text.