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license: MIT
title: 'cepip: Cell Explanatory Power with Inflection Point (CEP-IP) with CMRF'
version: 0.1.0
doi: 10.32614/CRAN.package.cepip
abstract: Implements the cell explanatory power with inflection point (CEP-IP) framework
  for single-cell co-expression analysis. A generalized additive model (GAM) fitted
  by restricted maximum likelihood (REML) with a penalized residual sum of squares
  (PRSS) search over the basis dimension relates a gene of interest to the mean of
  its partner genes. Cells are ranked by their explanatory power, and the inflection
  point is the first negative-to-positive zero crossing of a residual GAM. Optional
  extensions are the Spearman-Kendall cell-level score (SKCS) and the copula monotone
  recovery filter (CMRF), which recovers cells near the module through a tolerance
  band and a repeated stratified k-fold cross-validation gate. Downstream helpers
  give per-donor module fractions, paired donor-level differential expression and
  donor-level association models. CEP-IP is described in Wong (2026) <https://doi.org/10.1016/j.cmpb.2026.109372>.
authors:
- family-names: Wong
  given-names: Kah Keng
  email: kahkeng3@gmail.com
  orcid: https://orcid.org/0000-0001-7359-6202
repository: https://kahkengwong.r-universe.dev
repository-code: https://github.com/kahkengwong/cepip
commit: 6c3dc9da0f297de03c0a66520c98bcceff96c1a2
url: https://github.com/kahkengwong/cepip
date-released: '2026-10-27'
contact:
- family-names: Wong
  given-names: Kah Keng
  email: kahkeng3@gmail.com
  orcid: https://orcid.org/0000-0001-7359-6202