Package: wateRmelon
Type: Package
Title: Illumina 450 methylation array normalization and metrics
Version: 1.0.3
Date: 2013-01-12
Author: Leonard C Schalkwyk, Ruth Pidsley, Chloe CY Wong, with functions contributed by Nizar Touleimat, Matthieu Defrance, Andrew Teschendorff, Jovana Maksimovic
Maintainer: Leo <Leonard.Schalkwyk@kcl.ac.uk>
Description: 15 flavours of betas and three performance metrics, with methods for objects produced by methylumi, minfi and IMA packages.
License: GPL-3
Depends: R (>= 2.10), limma, methods, matrixStats, methylumi, lumi,
        IlluminaHumanMethylation450k.db, ROC
Enhances: minfi, methylumi, IMA
Suggests: RPMM
LazyLoad: yes
biocViews: DNAMethylation, Microarray, TwoChannel, Preprocessing,
        QualityControl
Collate: adaptRefQuantiles.R as.methylumi.R beta1.R Beta2M.R betaqn.R
        bgeq.R bgeqot.R bgeqq2.R bgeqqn.R BMIQ_1.1.R combo.R
        concatenateMatrices.R coRankedMatrices.R correctI.R correctII.R
        dataDetectPval2NA.R db1.R detectionPval.filter.R dfs2.R
        dfsfit.R dmrse.R dmrse_col.R dmrse_row.R dyebuy1.R dyebuy2.R
        dyebuy3.R dyebuy4.R filterXY.R findAnnotationProbes.R gcoms.R
        gcose.R genki.R genkme.R genkus.R getMethylumiBeta.R
        getQuantiles.R getSamples.R getsnp.R loadMethylumi2.R
        lumiMethyR2.R M2Beta.R melon.R nbBeadsFilter.R
        normalize.quantiles2.R normalizeIlluminaMethylation.R ot.R
        pasteque.R peak.correction.R pfilter.R
        pipelineIlluminaMethylation.batch.R
        preprocessIlluminaMethylation.R referenceQuantiles.R
        robustQuantileNorm_Illumina450K.probeCategories.R
        robustQuantileNorm_Illumina450K.R seabird.R sextest.R summits.R
        swan2.R uniqueAnnotationCategory.R AllGenerics.R x_methylumi.R
        y_minfi.R z_IMA.R
Packaged: 2013-06-07 07:17:19 UTC; biocbuild
Built: R 3.0.1; ; 2013-06-07 12:12:03 UTC; windows
