Package: MWASTools 1.31.0

Andrea Rodriguez-Martinez

MWASTools: MWASTools: an integrated pipeline to perform metabolome-wide association studies

MWASTools provides a complete pipeline to perform metabolome-wide association studies. Key functionalities of the package include: quality control analysis of metabonomic data; MWAS using different association models (partial correlations; generalized linear models); model validation using non-parametric bootstrapping; visualization of MWAS results; NMR metabolite identification using STOCSY; and biological interpretation of MWAS results.

Authors:Andrea Rodriguez-Martinez, Joram M. Posma, Rafael Ayala, Ana L. Neves, Maryam Anwar, Jeremy K. Nicholson, Marc-Emmanuel Dumas

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MWASTools.pdf |MWASTools.html✨
MWASTools/json (API)
NEWS

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

Peer review:

Datasets:

On BioConductor:MWASTools-1.29.0(bioc 3.20)MWASTools-1.28.0(bioc 3.19)

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

metabolomicslipidomicscheminformaticssystemsbiologyqualitycontrol

3.78 score 1 packages 3 scripts 296 downloads 1 mentions 23 exports 113 dependencies

Last updated 23 days agofrom:f47f1f8143. Checks:OK: 1 NOTE: 6. Indexed: yes.

TargetResultDate
Doc / VignettesOKOct 30 2024
R-4.5-winNOTEOct 31 2024
R-4.5-linuxNOTEOct 30 2024
R-4.4-winNOTEOct 31 2024
R-4.4-macNOTEOct 31 2024
R-4.3-winNOTEOct 31 2024
R-4.3-macNOTEOct 31 2024

Exports:CV_filterJBA_binningJBA_corDistributionJBA_plotBinsMWAS_barplotMWAS_bootstrappingMWAS_filterMWAS_heatmapMWAS_KEGG_networkMWAS_KEGG_pathwaysMWAS_KEGG_shortestpathsMWAS_networkMWAS_scatterplotMSMWAS_skylineNMRMWAS_statsMWAS_SummarizedExperimentplot_spectraNMRQC_CVQC_CV_scatterplotQC_CV_specNMRQC_PCAQC_PCA_scoreplotSTOCSY_NMR

Dependencies:abindaskpassbackportsBiobaseBiocGenericsBiostringsbitopsbootbroomcarcarDatacirclizecliclueclustercodetoolscolorspaceComplexHeatmapcowplotcpp11crayoncurlDelayedArrayDerivdigestdoBydoParalleldplyrfansifarverforeachFormulagenericsGenomeInfoDbGenomeInfoDbDataGenomicRangesGetoptLongggplot2glm2GlobalOptionsgluegraphgridExtragtablehttrigraphIRangesisobanditeratorsjsonliteKEGGgraphKEGGRESTlabelinglatticelifecyclelme4magrittrMASSMatrixMatrixGenericsMatrixModelsmatrixStatsmgcvmicrobenchmarkmimeminqamodelrmunsellnlmenloptrnnetnumDerivopensslpbkrtestpillarpkgconfigplyrpngppcorpurrrquantregqvalueR6RColorBrewerRcppRcppEigenRCurlreshape2RgraphvizrjsonrlangS4ArraysS4VectorsscalesshapeSparseArraySparseMstringistringrSummarizedExperimentsurvivalsystibbletidyrtidyselectUCSC.utilsutf8vctrsviridisLitewithrXMLXVectorzlibbioc

MWASTools

Rendered fromMWASTools.Rmdusingknitr::rmarkdownon Oct 30 2024.

Last update: 2018-09-06
Started: 2016-11-28