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 258 downloads 9 exports 79 dependencies

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

TargetResultTimeFilesSyslog
linux-develERROR143
source / vignettesERROR305
linux-releaseERROR104
macos-releaseERROR115
macos-oldrelERROR161
windows-develERROR47
windows-releaseERROR58
windows-oldrelERROR62
wasm-releaseOK110

Exports:expected_genotype_distgenotype_freqgenotype_probhaldane_mapjoint_mappermutation_testpheno_statsskeletion_buildskeleton_build

Dependencies:backportsbase64encbslibcachemcheckmatecliclustercodetoolscolorspacecpp11data.tabledigestemmeansestimabilityevaluatefarverfastmapfontawesomeforeignFormulafsggplot2ggrepelgluegridExtragtablehighrHmischtmlTablehtmltoolshtmlwidgetsisobandjquerylibjsonliteknitrlabelinglatticelifecyclelsmeansmagrittrMASSMatrixMatrixModelsmemoisemimemultcompmvtnormnlmennetnumDerivpolsplinequantregR6rappdirsRColorBrewerRcpprlangrmarkdownrmsrpartrstudioapiS7sandwichsassscalesSparseMStepRegstringistringrsurvAUCsurvivalTH.datatinytexvctrsviridisLitewithrxfunyamlzoo