UCSCSession-class

initialize,UCSCSession-method

track,UCSCSession-method

track<-,UCSCSession,GenomicRangesList-method

range<-

range<-,UCSCSession-method

track<-,UCSCSession,RTLFile-method

genome,UCSCSession-method

genome<-,UCSCSession-method

range,UCSCSession-method

seqinfo,UCSCSession-method

range,ucscCart-method

genome,ucscCart-method

getTable,UCSCSession-method

An implementation of <code><links4class>BrowserSession</links4class></code>
  for the <acronym>UCSC</acronym> genome browser.

classes

Extensible framework for interacting with multiple genome 
  browsers (currently UCSC built-in) and manipulating 
  annotation tracks in various formats (currently GFF, BED, bedGraph, BED15,
  WIG, BigWig and 2bit built-in). The user may export/import tracks to/from the
  supported browsers, as well as query and modify the browser state, such as the
  current viewport.

Michael Lawrence

rtracklayer

R interface to genome browsers and their annotation tracks

UCSCSession-class function

Objects can be created by calls of the form
  <code><a href="/link/browserSession?package=rtracklayer&version=1.32.0" rd-options="" data-mini-rdoc="rtracklayer::browserSession">browserSession</a>("ucsc", url =
    "http://genome.ucsc.edu/cgi-bin", ...)</code>. The arguments in <code>...</code>
  correspond to libcurl options, see
  <code><a href="/link/getCurlHandle?package=rtracklayer&version=1.32.0&to=RCurl" rd-options="RCurl" data-mini-rdoc="RCurl::getCurlHandle">getCurlHandle</a></code>. Setting these options may be
  useful e.g. for getting past a proxy.

Objects from the Class

Class <code>"<links4class>BrowserSession</links4class>"</code>, directly.

Extends

An implementation of <code><linkS4class>BrowserSession</linkS4class></code>
  for the <acronym>UCSC</acronym> genome browser.

Class "UCSCSession"

UCSCSession-class: Class "UCSCSession"

Description

Arguments

Objects from the Class

Extends

See Also