genes

A sample annotation containing collection of genes from RefSeq database in
the human genome mapped to UCSC freeze hg18. See UCSC table description page
for the details regarding the column headings.

datasets

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.

Nirav V Malani

hiAnnotator

Functions for annotating GRanges objects

genes function

A data frame with 33965 rows and 9 variables

format

<url>http://genome.ucsc.edu/cgi-bin/hgTables?db=hg18&hgta_table=refGene&hgta_doSchema=describe+table+schema</url>

genes: Sample RefSeq genes annotation

Description

Arguments

format

source