class:MotifList

MotifList-class

show,MotifList-method


  A direct subclass of SimpleList, having no extra slots, in which
  listData is a list of position frequency matrices (PFMs), and the
  elementMetadata slot is a DataFrame with fifteen columns describing
  each matrix.  Upon loading the MotifDb class, one MotifList object 
  is instantiated and filled with matrices and their metadata.  
  There should be no need for users to explicitly create objects of this
  class.  When you load the MotifDb package, a fully-populated instance
  of this class is created, with > 2000 matrices with metadata


classes

methods

More than 2000 annotated position frequency matrices from nine public sources, for multiple organisms.

Paul Shannon

MotifDb

An Annotated Collection of Protein-DNA Binding Sequence Motifs

MotifList-class function

<dl>
    <dt></dt><dd>
      <code>subset(x)</code>: extract matrices by metadata.
     </dd> <dt></dt><dd>
      <code>export(x)</code>: write matrices
    </dd> <dt></dt><dd>
      <code>show(x)</code>: describe matrices compactly
    </dd> <dt></dt><dd>
      <code>query(x)</code>: find matrices
    </dd> </dl> 

Methods

A direct subclass of SimpleList, having no extra slots, in which
  listData is a list of position frequency matrices (PFMs), and the
  elementMetadata slot is a DataFrame with fifteen columns describing
  each matrix.  Upon loading the MotifDb class, one MotifList object 
  is instantiated and filled with matrices and their metadata.  
  There should be no need for users to explicitly create objects of this
  class.  When you load the MotifDb package, a fully-populated instance
  of this class is created, with > 2000 matrices with metadata

MotifList-class: MotifList

Description

Arguments

Methods

Examples