AllGenerics.R prototype.R BiocParallelParam-class.R bploop.R
ErrorHandling.R log.R bpbackend-methods.R bpisup-methods.R
bplapply-methods.R bpmapply-methods.R bpiterate-methods.R
bpschedule-methods.R bpstart-methods.R bpstop-methods.R
bpvec-methods.R bpvectorize-methods.R bpworkers-methods.R
bpaggregate-methods.R bpvalidate.R SnowParam-class.R
MulticoreParam-class.R register.R SerialParam-class.R
DoparParam-class.R SnowParam-utils.R BatchJobsParam-class.R
BatchtoolsParam-class.R progress.R ipcmutex.R utilities.R

Bioconductor Package Maintainer [cre],
  Martin Morgan [aut],
  Valerie Obenchain [aut],
  Michel Lang [aut],
  Ryan Thompson [aut],
  Nitesh Turaga [aut]

Biobase: Base functions for Bioconductor

R. Gentleman, V. Carey, M. Morgan, S. Falcon

Functions that are needed by many other packages or which
        replace R functions.

tools, tkWidgets, ALL, RUnit, golubEsets

tools.R strings.R environment.R vignettes.R packages.R
AllGenerics.R VersionsClass.R VersionedClasses.R
methods-VersionsNull.R methods-VersionedClass.R DataClasses.R
methods-aggregator.R methods-container.R methods-MIAxE.R
methods-MIAME.R methods-AssayData.R
methods-AnnotatedDataFrame.R methods-eSet.R
methods-ExpressionSet.R methods-MultiSet.R methods-SnpSet.R
methods-NChannelSet.R anyMissing.R rowOp-methods.R
updateObjectTo.R methods-ScalarObject.R zzz.R

S4 generic functions needed by many Bioconductor packages.

methods, utils, graphics, stats, parallel

Biobase, S4Vectors, IRanges, GenomicRanges, Rsamtools,
AnnotationDbi, oligoClasses, oligo, affyPLM, flowClust, affy,
DESeq2, MSnbase, annotate, RUnit

S3-classes-as-S4-classes.R utils.R normarg-utils.R
hotfix73465.R replaceSlots.R append.R as.data.frame.R as.list.R
as.vector.R cbind.R do.call.R duplicated.R eval.R Extremes.R
funprog.R get.R grep.R is.unsorted.R lapply.R lengths.R
mapply.R match.R matrix-summary.R mean.R nrow.R order.R paste.R
rank.R rep.R row_colnames.R sets.R sort.R start.R subset.R t.R
table.R tapply.R unique.R unlist.R unsplit.R relist.R var.R
which.R boxplot.R image.R density.R IQR.R mad.R residuals.R
weights.R xtabs.R clusterApply.R annotation.R combine.R
dbconn.R dge.R dims.R fileName.R normalize.R Ontology.R
organism_species.R path.R plotMA.R plotPCA.R score.R strand.R
updateObject.R testPackage.R zzz.R