makeChunks

sites.rd

features.rd

number of rows to use per chunk of query. Default to
length(sites.rd)/detectCores() or length(query)/getDoParWorkers()
depending on parallel backend registered.

chunkSize

Given a query and subject GRanges objects, the function breaks query into
chunks of N size where each chunk has a respective subject object filtered
by seqnames present in the query chunk. This is a helper function used by
one of the annotation function in 'See Also' section where each chunk is
sent to a parallel node for processing.

hiAnnotator contains set of functions which allow users to
    annotate a GRanges object with custom set of annotations. The
    basic philosophy of this package is to take two GRanges
    objects (query & subject) with common set of seqnames (i.e.
    chromosomes) and return associated annotation per seqnames and rows
    from the query matching seqnames and rows from the subject (i.e.
    genes or cpg islands). The package comes with three types of annotation
    functions which calculates if a position from query is: within a feature,
    near a feature, or count features in defined window sizes. Moreover, each
    function is equipped with parallel backend to utilize the foreach package.
    In addition, the package is equipped with wrapper functions, which finds
    appropriate columns needed to make a GRanges object from a
    common data frame.

makeChunks: Breaks two GRanges objects into chunks of N size.

Description

Usage

Arguments

Value

See Also

Examples