Package: qtlcharts 0.17-2

qtlcharts: Interactive Graphics for QTL Experiments

Web-based interactive charts (using D3.js) for the analysis of experimental crosses to identify genetic loci (quantitative trait loci, QTL) contributing to variation in quantitative traits. Broman (2015) <doi:10.1534/genetics.114.172742>.

Authors:Karl W Broman [aut, cre], Michael Bostock [ctb, cph], jQuery Foundation [cph], jQuery contributors [ctb], jQuery UI contributors [ctb]

qtlcharts_0.17-2.tar.gz
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qtlcharts.pdf |qtlcharts.html✨
qtlcharts/json (API)
NEWS

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

Peer review:

Bug tracker:https://github.com/kbroman/qtlcharts/issues

Datasets:
  • geneExpr - Anonymized gene expression data
  • grav - Arabidopsis QTL data on gravitropism

On CRAN:

6.61 score 84 stars 322 scripts 457 downloads 3 mentions 47 exports 28 dependencies

Last updated 2 years agofrom:ecc8ed74c7. Checks:OK: 7. Indexed: yes.

TargetResultDate
Doc / VignettesOKOct 25 2024
R-4.5-winOKOct 25 2024
R-4.5-linuxOKOct 25 2024
R-4.4-winOKOct 25 2024
R-4.4-macOKOct 25 2024
R-4.3-winOKOct 25 2024
R-4.3-macOKOct 25 2024

Exports:cbindQTLeffectsestQTLeffectsiboxplotiboxplot_outputiboxplot_renderidotplotidotplot_outputidotplot_renderiheatmapiheatmap_outputiheatmap_renderipleiotropyipleiotropy_outputipleiotropy_renderiplotiplot_outputiplot_renderiplotCorriplotCorr_outputiplotCorr_renderiplotCurvesiplotCurves_outputiplotCurves_renderiplotMapiplotMap_outputiplotMap_renderiplotMScanoneiplotMScanone_outputiplotMScanone_renderiplotPXGiplotRFiplotRF_outputiplotRF_renderiplotScanoneiplotScanone_outputiplotScanone_renderiplotScantwoiplotScantwo_outputiplotScantwo_renderitriplotitriplot_outputitriplot_renderqtlchartsversionscat2scatscat2scat_outputscat2scat_rendersetScreenSize

Dependencies:base64encbslibcachemclidigestevaluatefastmapfontawesomefsgluehighrhtmltoolshtmlwidgetsjquerylibjsonliteknitrlifecyclememoisemimeqtlR6rappdirsrlangrmarkdownsasstinytexxfunyaml

Readme and manuals

Help Manual

Help pageTopics
R/qtlcharts: Interactive charts for QTL dataqtlcharts-package qtlcharts
Combine multiple runs of estQTLeffectscbindQTLeffects
Calculate QTL effects at each position across the genomeestQTLeffects
Anonymized gene expression datageneExpr
Arabidopsis QTL data on gravitropismgrav
Modern boxplot linked to underlying histrogramsiboxplot
Shiny bindings for R/qtlcharts widgetsiboxplot_output iboxplot_render idotplot_output idotplot_render iheatmap_output iheatmap_render ipleiotropy_output ipleiotropy_render iplotCorr_output iplotCorr_render iplotCurves_output iplotCurves_render iplotMap_output iplotMap_render iplotMScanone_output iplotMScanone_render iplotRF_output iplotRF_render iplotScanone_output iplotScanone_render iplotScantwo_output iplotScantwo_render iplot_output iplot_render itriplot_output itriplot_render qtlcharts-shiny scat2scat_output scat2scat_render
Interactive phenotype x genotype plotidotplot
Interactive heat mapiheatmap
Tool to explore pleiotropyipleiotropy
Interactive scatterplotiplot
Image of correlation matrix with linked scatterplotiplotCorr
Plot of a bunch of curves, linked to points in scatterplotsiplotCurves
Interactive genetic map plotiplotMap
Interactive LOD curveiplotMScanone
Interactive phenotype x genotype plotiplotPXG
Interactive plot of recombination fractionsiplotRF
Interactive LOD curveiplotScanone
Interactive plot of 2d genome scaniplotScantwo
Interactive plot of trinomial probabilitiesitriplot
print the installed version of R/qtlchartsqtlchartsversion
Scatterplot driving another scatterplotscat2scat
Set default maximum screen sizesetScreenSize