BiocGenerics-package S4 generic functions for Bioconductor Extremes Maxima and minima IQR The Interquartile Range Ontology Generic Ontology getter S3-classes-as-S4-classes S3 classes as S4 classes annotation Accessing annotation information append Append elements to a vector-like object as.data.frame Coerce to a data frame as.list Coerce to a list as.vector Coerce an object into a vector boxplot Box plots cbind Combine objects by rows or columns colSums Form Row and Column Sums and Means combine Combining or merging different Bioconductor data structures conditions Accessors and generic functions used in the context of count datasets dbconn Accessing SQLite DB information density Kernel density estimation dims Get the dimensions of each element of a list-like object do.call Execute a function call duplicated Determine duplicate elements eval Evaluate an (unevaluated) expression evalq Evaluate an (unevaluated) expression fileName Accessing the file name of an object funprog Common higher-order functions in functional programming languages get Return the value of a named object grep Pattern Matching and Replacement image Display a color image is.unsorted Test if a vector-like object is not sorted lapply Apply a function over a list-like or vector-like object mad Median Absolute Deviation mapply Apply a function to multiple list-like or vector-like arguments match Value matching mean Arithmetic Mean normalize Normalize an object nrow The number of rows/columns of an array-like object order Ordering permutation organism_species Organism and species accessors paste Concatenate strings path Accessing the path of an object plotMA MA-plot: plot differences versus averages for high-throughput data plotPCA PCA-plot: Principal Component Analysis plot rank Ranks the values in a vector-like object relist Re-listing an unlist()ed object rep.int Replicate elements of a vector-like object residuals Extract model residuals row+colnames Row and column names score Score accessor sets Set operations sort Sorting a vector-like object start The start(), end(), width(), and pos() generic getters and setters strand Accessing strand information subset Subsetting vector-like, matrix-like and data-frame-like objects t Matrix Transpose table Cross tabulation and table creation tapply Apply a function over a ragged array testPackage Run RUnit package unit tests toTable An alternative to as.data.frame() type Accessing the type of an object unique Extract unique elements unlist Flatten list-like objects unsplit Unsplit a list-like object updateObject Update an object to its current class definition var Variance and Standard Deviation weights Extract model weights which Which values in an object are considered TRUE? which.min What's the index of the first min or max value in an object? xtabs Cross tabulation