Package: EMAS 0.2.2

EMAS: Epigenome-Wide Mediation Analysis Study

DNA methylation is essential for human, and environment can change the DNA methylation and affect body status. Epigenome-Wide Mediation Analysis Study (EMAS) can find potential mediator CpG sites between exposure (x) and outcome (y) in epigenome-wide. For more information on the methods we used, please see the following references: Tingley, D. (2014) <doi:10.18637/jss.v059.i05>, Turner, S. D. (2018) <doi:10.21105/joss.00731>, Rosseel, D. (2012) <doi:10.18637/jss.v048.i02>.

Authors:Xiuquan Nie [aut, cph, cre], Mengyi Wang [ctb, rev], Weihong Chen [fnd]

EMAS_0.2.2.tar.gz
EMAS_0.2.2.zip(r-4.5)EMAS_0.2.2.zip(r-4.4)EMAS_0.2.2.zip(r-4.3)
EMAS_0.2.2.tgz(r-4.4-any)EMAS_0.2.2.tgz(r-4.3-any)
EMAS_0.2.2.tar.gz(r-4.5-noble)EMAS_0.2.2.tar.gz(r-4.4-noble)
EMAS_0.2.2.tgz(r-4.4-emscripten)EMAS_0.2.2.tgz(r-4.3-emscripten)
EMAS.pdf |EMAS.html✨
EMAS/json (API)

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

Peer review:

Datasets:
  • E.result - An 'Emas' results data.
  • Mvalue - A M-value matrix for 221 participants
  • data.m - A data for 221 participants

On CRAN:

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

1.00 score 190 downloads 4 exports 190 dependencies

Last updated 2 years agofrom:31172f224d. Checks:OK: 3 NOTE: 4. Indexed: yes.

TargetResultDate
Doc / VignettesOKNov 11 2024
R-4.5-winNOTENov 11 2024
R-4.5-linuxNOTENov 11 2024
R-4.4-winNOTENov 11 2024
R-4.4-macNOTENov 11 2024
R-4.3-winOKNov 11 2024
R-4.3-macOKOct 12 2024

Exports:EmasEMAS.manhattanEmas.parallelEMAS.volcano

Dependencies:abindannotateAnnotationDbiaskpassbackportsbase64base64encbeanplotBHBiobaseBiocGenericsBiocIOBiocParallelBiostringsbitbit64bitopsblobbootbslibbumphuntercachemcalibratecheckmateclicliprclustercodetoolscolorspacecpp11crayoncurldata.tableDBIDelayedArrayDelayedMatrixStatsdigestdoRNGdplyrevaluatefansifarverfastmapfontawesomeforeachforeignformatRFormulafsfutile.loggerfutile.optionsgenefiltergenericsGenomeInfoDbGenomeInfoDbDataGenomicAlignmentsGenomicFeaturesGenomicRangesGEOqueryggplot2gluegridExtragtableHDF5ArrayhighrHmischmshtmlTablehtmltoolshtmlwidgetshttrhttr2IlluminaHumanMethylation450kanno.ilmn12.hg19IlluminaHumanMethylationEPICanno.ilm10b4.hg19illuminaioIRangesisobanditeratorsjquerylibjsonliteKEGGRESTknitrlabelinglambda.rlatticelavaanlifecyclelimmalme4locfitlpSolvemagrittrMASSMatrixMatrixGenericsmatrixStatsmclustmediationmemoisemgcvmimeminfiminqamnormtmultilevelmulttestmunsellmvtnormnlmenloptrnnetnor1mixnumDerivopensslpbivnormpillarpkgconfigplogrplyrpngpreprocessCoreprettyunitsprogresspurrrqqmanquadprogR.methodsS3R.ooR.utilsR6rappdirsRColorBrewerRcppRcppEigenRCurlreadrrentrezreshaperestfulrrhdf5rhdf5filtersRhdf5libRhtslibrjsonrlangrmarkdownrngtoolsrpartRsamtoolsRSQLiterstudioapirtracklayerrvestS4ArraysS4VectorssandwichsassscalesscrimeselectrsiggenessnowSparseArraysparseMatrixStatsstatmodstringistringrSummarizedExperimentsurvivalsystibbletidyrtidyselecttinytextzdbUCSC.utilsutf8vctrsviridisviridisLitevroomwithrxfunXMLxml2xtableXVectoryamlzlibbioczoo