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PheCAP: High-Throughput Phenotyping with EHR using a Common Automated Pipeline

Implement surrogate-assisted feature extraction (SAFE) and common machine learning approaches to train and validate phenotyping models. Background and details about the methods can be found at Zhang et al. (2019) <doi:10.1038/s41596-019-0227-6>, Yu et al. (2017) <doi:10.1093/jamia/ocw135>, and Liao et al. (2015) <doi:10.1136/bmj.h1885>.

Version: 1.2.1
Depends: R (≥ 3.3.0)
Imports: graphics, methods, stats, utils, glmnet, RMySQL
Suggests: ggplot2, e1071, randomForestSRC, xgboost, knitr, rmarkdown
Published: 2020-09-17
DOI: 10.32614/CRAN.package.PheCAP
Author: Yichi Zhang [aut], Chuan Hong [aut], Tianxi Cai [aut], PARSE LTD [aut, cre]
Maintainer: PARSE LTD <software at parse-health.org>
BugReports: https://github.com/celehs/PheCAP/issues
License: GPL-3
URL: https://celehs.github.io/PheCAP/, https://github.com/celehs/PheCAP
NeedsCompilation: no
Materials: README
CRAN checks: PheCAP results

Documentation:

Reference manual: PheCAP.pdf
Vignettes: NER using MetaMAP
Running NLP using NILE
Example 1: Simulated Data
Example 2: Real EHR Data
Main Steps

Downloads:

Package source: PheCAP_1.2.1.tar.gz
Windows binaries: r-devel: PheCAP_1.2.1.zip, r-release: PheCAP_1.2.1.zip, r-oldrel: PheCAP_1.2.1.zip
macOS binaries: r-release (arm64): PheCAP_1.2.1.tgz, r-oldrel (arm64): PheCAP_1.2.1.tgz, r-release (x86_64): PheCAP_1.2.1.tgz, r-oldrel (x86_64): PheCAP_1.2.1.tgz
Old sources: PheCAP archive

Linking:

Please use the canonical form https://CRAN.R-project.org/package=PheCAP to link to this page.

These binaries (installable software) and packages are in development.
They may not be fully stable and should be used with caution. We make no claims about them.
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