Package: FunctanSNP 0.1.0

Rui Ren

FunctanSNP: Functional Analysis (with Interactions) for Dense SNP Data

An implementation of revised functional regression models for multiple genetic variation data, such as single nucleotide polymorphism (SNP) data, which provides revised functional linear regression models, partially functional interaction regression analysis with penalty-based techniques and corresponding drawing functions, etc.(Ruzong Fan, Yifan Wang, James L. Mills, Alexander F. Wilson, Joan E. Bailey-Wilson, and Momiao Xiong (2013) <doi:10.1002/gepi.21757>).

Authors:Rui Ren [aut, cre], Kuangnan Fang [aut], Qingzhao Zhang [aut], Shuangge Ma [aut]

FunctanSNP_0.1.0.tar.gz
FunctanSNP_0.1.0.tar.gz(r-4.7-any)FunctanSNP_0.1.0.tar.gz(r-4.6-any)
FunctanSNP_0.1.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
FunctanSNP/json (API)

# Install 'FunctanSNP' in R:

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

On CRAN:

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

1.40 score 25 scripts 147 downloads 12 exports 101 dependencies

Last updated from:6d7465d337. Checks:2 NOTE, 2 OK. Indexed: yes.

Target	Result	Time
linux-devel-x86_64	NOTE	178
source / vignettes	OK	217
linux-release-x86_64	NOTE	177
wasm-release	OK	118

Exports:coefSNPreg plotGVF plotRawdata plotSNPreg predictSNPreg simData1 simData2 simX SNPcvinter SNPgvf SNPinter SNPlm

Dependencies:abind ash bitops caret class cli clock cluster codetools colorspace cpp11 data.table deSolve diagram digest dotCall64 dplyr e1071 farver fda fds fields FNN foreach funData future future.apply generics ggplot2 glmnet globals glue gower gtable hardhat hdrcde ipred isoband iterators kernlab KernSmooth ks labeling lattice lava lifecycle listenv locfit lubridate magrittr maps MASS Matrix mclust mgcv ModelMetrics multicool mvtnorm nlme nnet numDeriv parallelly pcaPP pillar pkgconfig plyr pracma pROC prodlim progressr proxy purrr R6 rainbow RColorBrewer Rcpp RcppEigen RCurl recipes reshape2 rlang rpart S7 scales shape spam sparsevctrs SQUAREM stringi stringr survival tibble tidyr tidyselect timechange timeDate tzdb utf8 vctrs viridisLite withr

Help page	Topics
Extract coefficients from an SNPlm or SNPinter object	coefSNPreg
Plot the genetic variant function	plotGVF
Visualization of the sequence (genotypes) data	plotRawdata
Plot coefficient functions and residuals from an SNPlm or SNPinter object	plotSNPreg
Make predictions from an SNPlm or SNPinter object	predictSNPreg
Generate simulated data for 'SNPlm'	simData1
Generate simulated data for 'SNPinter' and 'SNPcvinter'	simData2
Generate the sequence (genotypes) data containing only 0, 1 and 2	simX
Cross-validation for 'SNPinter'	SNPcvinter
Transform the sequence (genotypes) data into the genetic variant function	SNPgvf
Revised partially functional interaction regression analysis for the sequence (genotypes) data	SNPinter
Revised functional linear regression analysis for the sequence (genotypes) data	SNPlm

Package: FunctanSNP 0.1.0

FunctanSNP: Functional Analysis (with Interactions) for Dense SNP Data

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Readme and manuals

Help Manual

Usage by other packages (reverse dependencies)