map-methods

pmap

Typically an object containing ranges to map.

from

Typically an object representing an alignment.


  <code>map</code> and <code>pmap</code> are defunct. Use <code>mapCoords</code>
  and <code>pmapCoords</code> instead. <p></p><p>  The <code>map</code> generic converts a set of ranges to the equivalent
  ranges on another sequence, through some sort of alignment between
  sequences, and outputs a GRangesMapping object. 
  There are two components of that object: the transformed <code>granges</code>, 
  and the <code>hits</code>, a <code>Hits</code> object of the same length
  that matches each input range to a destination sequence (useful when
  the alignment is one/many to many). The <code>pmap</code> function is
  simpler: it treats the two inputs as parallel vectors, maps each input
  range via the corresponding alignment, and returns the mapped
  ranges. There is one result per input element, instead of the
  many-to-many result from <code>map</code>.
</p>

classes

methods

The package provides efficient low-level and highly reusable S4
classes for storing ranges of integers, RLE vectors (Run-Length
Encoding), and, more generally, data that can be organized
sequentially (formally defined as Vector objects), as well as views
on these Vector objects.
Efficient list-like classes are also provided for storing big
collections of instances of the basic classes. All classes in
the package use consistent naming and share the same rich and
consistent "Vector API" as much as possible.

Bioconductor Package Maintainer

IRanges

Infrastructure for manipulating intervals on sequences

map-methods function


  <code>map</code> and <code>pmap</code> are defunct. Use <code>mapCoords</code>
  and <code>pmapCoords</code> instead. 

  The <code>map</code> generic converts a set of ranges to the equivalent
  ranges on another sequence, through some sort of alignment between
  sequences, and outputs a GRangesMapping object. 
  There are two components of that object: the transformed <code>granges</code>, 
  and the <code>hits</code>, a <code>Hits</code> object of the same length
  that matches each input range to a destination sequence (useful when
  the alignment is one/many to many). The <code>pmap</code> function is
  simpler: it treats the two inputs as parallel vectors, maps each input
  range via the corresponding alignment, and returns the mapped
  ranges. There is one result per input element, instead of the
  many-to-many result from <code>map</code>.


map-methods: Mapping of ranges to another sequence

Description

Usage

Arguments

See Also