Package: ROKET 1.0.0

Paul Little

ROKET: Optimal Transport-Based Kernel Regression

Perform optimal transport on somatic point mutations and kernel regression hypothesis testing by integrating pathway level similarities at the gene level (Little et al. (2023) <doi:10.1111/biom.13769>). The software implements balanced and unbalanced optimal transport and omnibus tests with 'C++' across a set of tumor samples and allows for multi-threading to decrease computational runtime.

Authors:Paul Little [aut, cre]

ROKET_1.0.0.tar.gz
ROKET_1.0.0.tar.gz(r-4.5-noble)ROKET_1.0.0.tar.gz(r-4.4-noble)
ROKET_1.0.0.tgz(r-4.4-emscripten)ROKET_1.0.0.tgz(r-4.3-emscripten)
ROKET.pdf |ROKET.html
ROKET/json (API)

# Install 'ROKET' in R:
install.packages('ROKET', repos = c('https://cran.r-universe.dev', 'https://cloud.r-project.org'))
Uses libs:
  • openblas– Optimized BLAS
  • c++– GNU Standard C++ Library v3
  • openmp– GCC OpenMP (GOMP) support library

On CRAN:

Conda:

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

openblascppopenmp

2.00 score 7 exports 169 dependencies

Last updated 10 days agofrom:c650735d34. Checks:3 OK. Indexed: yes.

TargetResultLatest binary
Doc / VignettesOKMar 06 2025
R-4.5-linux-x86_64OKMar 06 2025
R-4.4-linux-x86_64OKMar 06 2025

Exports:kernTESTkOT_sim_AGGkOT_sim_makekOT_sim_OTkOT_sim_REGrun_myOTrun_myOTs

Dependencies:apeaskpassbase64encbitopsbootbrewbriobslibcachemcallrcaToolsclicliprclueclustercodetoolscolorspacecommonmarkCompQuadFormcpp11crayoncredentialscrosstalkcurldata.tabledescdevtoolsdiffobjdigestdirmultdownlitdplyrellipsisevaluatefansifarverfastmapfBasicsfontawesomeforeachfsgenericsgertggplot2ggrepelghgitcredsgluegplotsgssgtablegtoolsGUniFrachighrhtmltoolshtmlwidgetshttpuvhttrhttr2iniinlineisobanditeratorsjquerylibjsonlitekernlabKernSmoothknitrlabelinglaterlatticelazyevallifecyclelme4magrittrMASSMatrixMatrixModelsmatrixStatsmemoisemgcvmimeminiUIminqaMiRKATmixtoolsmodeestmunsellnlmenloptropensslPearsonDSpermutepillarpkgbuildpkgconfigpkgdownpkgloadplotlypraiseprettyunitsprocessxprofvispromisespspurrrquantregR6raggrappdirsrbibutilsrcmdcheckRColorBrewerRcppRcppArmadilloRcppEigenRCurlRdpackreformulasremotesrlangrmarkdownrmutilroxygen2rpartrprojrootrstudioapirversionssassscalessegmentedsessioninfoshinysmartersourcetoolsSparseMspatialstablestablediststatipstatmodstringistringrsurvivalsyssystemfontstestthattextshapingtibbletidyrtidyselecttimeDatetimeSeriestinytexurlcheckerusethisutf8vctrsveganviridisLitewaldowhiskerwithrxfunxml2xopenxtableyamlzip

Introduction

Rendered fromintro.Rmdusingknitr::rmarkdownon Mar 06 2025.

Last update: 2025-03-06
Started: 2025-03-06

Readme and manuals

Help Manual

Help pageTopics
kernTESTkernTEST
kOT_sim_AGGkOT_sim_AGG
kOT_sim_makekOT_sim_make
kOT_sim_OTkOT_sim_OT
kOT_sim_REGkOT_sim_REG
run_myOTrun_myOT
run_myOTsrun_myOTs