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Member since Aug 18, 2006, follows 0 people, 0 public groups, 390 public bookmarks (403 total).

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  • NCBI Sequence Viewer v2.0 on 2006-08-31
    • agaga
      1201 tcctggccac tggtattaag

    • gcgtg


      181 gaccgcttgc tgcaa
      ct
    • 1 more annotations...
  • UNIX Basics : Examples with awk: A short introduction on 2006-08-26


    • ls files_list | awk '{print "mv "$1" "$1".new"}' | sh
  • Programming Ruby: The Pragmatic Programmer's Guide on 2006-08-23
    • class Song



        attr_reader :name, :artist, :duration



      end
    • class KaraokeSong < Song
        def initialize(name, artist, duration, lyrics)
          super(name, artist, duration)
          @lyrics = lyrics
        end
      end
  • Windows XP Accessory and Software Headaches: Too many programs start when Windows XP starts. : Yahoo! Tech on 2006-08-20
  • Programming Ruby: The Pragmatic Programmer's Guide on 2006-08-20
    • Sometimes creating arrays of words can be a pain, what with all the
      quotes and commas. Fortunately, there's a shortcut: %w does just
      what we want.














      a = %w{ ant bee cat dog elk }

      a[0]
      		 »
      "ant"

      a[3]
      		 »
      "dog"




      Ruby hashes are similar to arrays. A hash literal uses braces rather than
      square brackets. The literal must supply two objects for every
      entry: one for the key, the other for the value.


      For example, you might want to map musical instruments to their
      orchestral sections. You could do this with a hash.






      instSection = {
        'cello'     => 'string',
        'clarinet'  => 'woodwind',
        'drum'      => 'percussion',
        'oboe'      => 'woodwind',
        'trumpet'   => 'brass',
        'violin'    => 'string'
      }



      Hashes are indexed using the same square bracket notation as arrays.















      instSection['oboe']
      		 »
      "woodwind"

      instSection['cello']
      		 »
      "string"

      instSection['bassoon']
      		 »
      nil
  • Elucidation of the Small RNA Component of the Transcriptome -- Lu et al. 309 (5740): 1567 -- Science on 2006-08-19


    • Elucidation of the Small RNA Component of the Transcriptome




      Cheng Lu,1
      Shivakundan Singh Tej,1
      Shujun Luo,4
      Christian D. Haudenschild,4
      Blake C. Meyers,1,2*
      Pamela J. Green
  • Bio::Phylo::Treedrawer - An object-oriented facade for drawing trees. - search.cpan.org on 2006-08-19

    • Bio::Phylo::Treedrawer - An object-oriented facade for drawing trees.



      SYNOPSIS ^



       use Bio::Phylo::Treedrawer;
       use Bio::Phylo::IO;
       
       my $treedrawer = Bio::Phylo::Treedrawer->new(
          -width  => 400,
          -height => 600,
          -shape  => 'CURVY', # curvogram
          -mode   => 'CLADO', # cladogram
          -format => 'SVG'
       );
       
       my $tree = Bio::Phylo::IO->parse(
          -format => 'newick',
          -string => '((A,B),C);'
       )->first;
       
       $treedrawer->set_tree($tree);
       $treedrawer->set_padding(50);
       
       my $string = $treedrawer->draw;


      DESCRIPTION ^



      This module prepares a tree object for drawing (calculating coordinates for nodes) and calls the appropriate format-specific drawer.

  • TreeGrow: Building the Tree Structure on 2006-08-19

    • TreeGrow: Building the Tree Structure


      ToL authors use TreeGrow to create the tree structure
      that constitutes the backbone of the ToL web site. TreeGrow
      also provides tools to attach group names and taxon properties (e.g.,
      extinct, non-monophyletic) to nodes in the tree. Once the tree structure
      has been uploaded to the ToL Database, web pages and media files
      can be attached to nodes in the tree using the ToL
      Web Tools      .


      objects attached to a node in the tree
  • Tree of Life FAQs on 2006-08-19
    • Can I get my hands on the tree structure you use for the ToL site?

      You'll find a link to a static XML file with the current ToL structure
      on the Downloading the
      ToL Tree Structure       page.
  • README on 2006-08-19
    • . The internally written program 'TreeBrowse' converts the primary tree files into interactive tree images on the web interface. It allows users to browse through tree structures by collapsing or expanding tree branches, to color-highlight selected members via check boxes on the Family Browser Pages and to open their annotation pages by clicking on the encoded hyperlinks in the tree images

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