Package: iCARE 1.35.0

Parichoy Pal Choudhury

iCARE: Individualized Coherent Absolute Risk Estimation (iCARE)

An R package to build, validate and apply absolute risk models

Authors:Parichoy Pal Choudhury, Paige Maas, William Wheeler, Nilanjan Chatterjee

iCARE_1.35.0.tar.gz
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iCARE.pdf |iCARE.html✨
iCARE/json (API)

# Install 'iCARE' in R:

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

Datasets:

bc_72_snps - Data for examples
bc_inc - Data for examples
bc_model_cov_info - Data for examples
bc_model_formula - Data for examples
bc_model_log_or - Data for examples
bc_model_log_or_post_50 - Data for examples
mort_inc - Data for examples
new_cov_prof - Data for examples
new_snp_prof - Data for examples
output - Data for examples
ref_cov_dat - Data for examples
ref_cov_dat_post_50 - Data for examples
validation.cohort.data - Data for examples
validation.nested.case.control.data - Data for examples

On BioConductor:iCARE-1.35.0(bioc 3.21)iCARE-1.34.0(bioc 3.20)

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

software statisticalmethod genomewideassociation

4.78 score 9 scripts 323 downloads 12 mentions 4 exports 67 dependencies

Last updated 2 months agofrom:6ae8860ee9. Checks:OK: 1 WARNING: 8. Indexed: yes.

Target	Result	Date
Doc / Vignettes	OK	Dec 23 2024
R-4.5-win-x86_64	WARNING	Dec 23 2024
R-4.5-linux-x86_64	WARNING	Dec 23 2024
R-4.4-win-x86_64	WARNING	Dec 23 2024
R-4.4-mac-x86_64	WARNING	Dec 23 2024
R-4.4-mac-aarch64	WARNING	Dec 23 2024
R-4.3-win-x86_64	WARNING	Dec 23 2024
R-4.3-mac-x86_64	WARNING	Dec 23 2024
R-4.3-mac-aarch64	WARNING	Dec 23 2024

Exports:computeAbsoluteRisk computeAbsoluteRiskSplitInterval ModelValidation plotModelValidation

Dependencies:backports base64enc bslib cachem checkmate cli cluster colorspace data.table digest evaluate fansi farver fastmap fontawesome foreign Formula fs ggplot2 glue gridExtra gtable gtools highr Hmisc htmlTable htmltools htmlwidgets isoband jquerylib jsonlite knitr labeling lattice lifecycle magrittr MASS Matrix memoise mgcv mime munsell nlme nnet pillar pkgconfig plotrix R6 rappdirs RColorBrewer rlang rmarkdown rpart rstudioapi sass scales stringi stringr tibble tinytex utf8 vctrs viridis viridisLite withr xfun yaml

iCARE Vignette

Rendered fromvignette.Rnwusingutils::Sweaveon Dec 23 2024.

Last update: 2018-11-28
Started: 2016-01-28

iCARE Vignette Model Validation

Rendered fromvignette_model_validation.Rnwusingutils::Sweaveon Dec 23 2024.

Last update: 2019-02-27
Started: 2018-08-17

Citation

Development and contributors

Readme and manuals

Help Manual

Help page	Topics
Data for examples	bc_72_snps bc_data bc_inc bc_model_cov_info bc_model_formula bc_model_log_or bc_model_log_or_post_50 mort_inc new_cov_prof new_snp_prof output ref_cov_dat ref_cov_dat_post_50 validation.cohort.data validation.nested.case.control.data
Building and Applying an Absolute Risk Model	computeAbsoluteRisk
Building and Applying an Absolute Risk Model: Compute Risk over Interval Split in Two Parts	computeAbsoluteRiskSplitInterval
A Tool for Individualized Coherent Absolute Risk Estimation (iCARE)	iCARE
Model Validation	ModelValidation
Model Validation Plot	plot plotModelValidation

Usage by other packages (reverse dependencies)