Package: JM4QTN 1.0.0

JM4QTN: Joint Mapping for Quantitative Trait Loci

A comprehensive computational framework for joint mapping, developed by Junhui Li (2016; doi:10.11841/j.issn.1007-4333.2016.06.002), supports quantitative trait locus detection in structured genetic populations. It integrates robust phenotype summarization, computes genotype probabilities, and imputes missing markers for association and linkage mapping. Empirical significance thresholds are estimated via permutation testing coupled with stepwise regression. The framework enables genome-wide scans under both univariate and multivariate trait models, streamlining the discovery of complex genetic architectures.

Authors:Junhui Li [aut, cre], Wenxin Liu [aut]

JM4QTN_1.0.0.tar.gz
JM4QTN_1.0.0.zip(r-4.7-any)JM4QTN_1.0.0.zip(r-4.6-any)JM4QTN_1.0.0.zip(r-4.5-any)
JM4QTN_1.0.0.tgz(r-4.6-any)JM4QTN_1.0.0.tgz(r-4.5-any)
JM4QTN_1.0.0.tar.gz(r-4.7-any)JM4QTN_1.0.0.tar.gz(r-4.6-any)
JM4QTN_1.0.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION
card.svg |card.png
JM4QTN/json (API)

# Install 'JM4QTN' in R:
install.packages('JM4QTN', repos = c('https://junhuili1017.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/junhuili1017/jm4qtn/issues

Datasets:
  • GeneticMap - Data about genetic map
  • GenoData - Data about molecular markers genotype
  • GenoData_EST - Data about information of molecular markers chromosome id, genetic distance position and genotype with estimated missing markers
  • GenoData_S2 - Data about information of molecular markers chromosome id, genetic distance position and estimated missing markers genotype with steps = 2
  • PhenoData - Data about all phenotype

On CRAN:

Conda:

3.00 score 317 downloads 9 exports 79 dependencies

Last updated from:7ab88ec961. Checks:8 ERROR, 1 OK. Indexed: yes.

TargetResultTimeFilesSyslog
linux-develERROR132
source / vignettesERROR218
linux-releaseERROR169
macos-releaseERROR70
macos-oldrelERROR100
windows-develERROR52
windows-releaseERROR55
windows-oldrelERROR59
wasm-releaseOK145

Exports:expected_genotype_distgenotype_freqgenotype_probhaldane_mapjoint_mappermutation_testpheno_statsskeletion_buildskeleton_build

Dependencies:backportsbase64encbslibcachemcheckmatecliclustercodetoolscolorspacecpp11data.tabledigestemmeansestimabilityevaluatefarverfastmapfontawesomeforeignFormulafsggplot2ggrepelgluegridExtragtablehighrHmischtmlTablehtmltoolshtmlwidgetsisobandjquerylibjsonliteknitrlabelinglatticelifecyclelsmeansmagrittrMASSMatrixMatrixModelsmemoisemimemultcompmvtnormnlmennetnumDerivpolsplinequantregR6rappdirsRColorBrewerRcpprlangrmarkdownrmsrpartrstudioapiS7sandwichsassscalesSparseMStepRegstringistringrsurvAUCsurvivalTH.datatinytexvctrsviridisLitewithrxfunyamlzoo