Tag «tree method»: downloads

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Bio::Tree::Tree 1.4 by Jason Stajich

Bio::Tree::Tree is an implementation of TreeI interface.

SYNOPSIS

# like from a TreeIO
my $treeio = new Bio::TreeIO(-format => 'newick', -file => 'treefile.dnd');
my $tree = $treeio->next_tree;
my @nodes = $tree->get_nodes;
my $root = $tree->get_root_node;

This objec… 

JDumpViewer 0.2 by Scott Bartram

JDumpViewer is a tool for analyzing Java thread dumps.

ToDo:
General

detect and handle parse exceptions - display info to user
add options to compare - select which fields to compare
add a new view to show threads as tree nodes and dump number as leaf node
use graphviz to display lock… 

RumAVL 2.0.2 by Jesse Long

RumAVL is a C implementation of a Threaded AVL Tree. An AVL Tree is a self- balancing binary search tree, as described by Adelson-Velskii and Landis. Threading is a method of linking the unused links of leaves to the next node in sequence, making traversing the tree easier.

RumAVL provides a opaq… 

Bio::Tree::NodeNHX 1.4 by Aaron Mackey

Bio::Tree::NodeNHX is a Simple Tree Node with support for NHX tags.

SYNOPSIS

use Bio::Tree::NodeNHX;
my $nodeA = new Bio::Tree::NodeNHX();
my $nodeL = new Bio::Tree::NodeNHX();
my $nodeR = new Bio::Tree::NodeNHX();

my $node = new Bio::Tree::NodeNHX();
$node->add_… 

XML::Handler::Trees 0.02 by Eric Bohlman

XML::Handler::Trees is a PerlSAX handlers for building tree structures.

SYNOPSIS

use XML::Handler::Trees;
use XML::Parser::PerlSAX;

my $p=XML::Parser::PerlSAX->new();
my $h=XML::Handler::Tree->new();
my $tree=$p->parse(Handler=>$h,Source=>{SystemId=>'file.xml'});

my $p=XML… 

Tree::Simple::SAX 0.01 by Stevan Little

Tree::Simple::SAX is a set of classes for using Tree::Simple with XML.

SYNOPSIS

use Tree::Simple::SAX;
use XML::SAX::ParserFactory;

my $handler = Tree::Simple::SAX::Handler->new(Tree::Simple->new());

my $p = XML::SAX::ParserFactory->parser(Handler => $handler);
$p->parse_… 

Tree::Numbered 2.02 by Yosef Meller

Tree::Numbered is a thin N-ary tree structure with a unique number for each item.

SYNOPSYS

use Tree::Numbered;
my $tree = Tree::Numbered->new('John Doe');
$tree->append('John Doe Jr.');
$tree->append('Marry-Jane Doe');

while (my $branch = $tree->nextNode) {
$branch->delete if (… 

Tree::Binary 0.07 by Stevan Little

Tree::Binary is a Object Oriented Binary Tree for Perl.

SYNOPSIS

use Tree::Binary;

# a tree representaion of the expression:
# ((2 + 2) * (4 + 5))
my $btree = Tree::Binary->new("*")
->setLeft(
Tree::Binary->new("+")
… 

Graph::ModularDecomposition 0.13 by Andras Salamon

Graph::ModularDecomposition is a Perl module for modular decomposition of directed graphs.

SYNOPSIS

use Graph::ModularDecomposition qw(pairstring_to_graph tree_to_string);
my $g = new Graph::ModularDecomposition;

my $h = $g->pairstring_to_graph( 'ab,ac,bc' );
print "yesn"… 

XML::Filter::Dispatcher 0.52 by Barrie Slaymaker

XML::Filter::Dispatcher is a path based event dispatching with DOM support.

SYNOPSIS

use XML::Filter::Dispatcher qw( :all );

my $f = XML::Filter::Dispatcher->new(
Rules => [
'foo' => &handle_foo_start_tag,
'@bar' => &hand… 

KProf 1.4.2 by Colin Desmond

KProf is a visual tool for developers, which displays the execution profiling output generated by code profilers.

The output of profilers being usually difficult to read (beyond the flat profile information), KProf presents the information in list- or tree-views that make the information very eas… 

PrIMETV 1.5.2 by Lars Arvestad

PrIMETV project is a program that can visualize tree-within-tree phenomena such as gene/species tree reconciliations.

Output can be given in a range of formats, e.g. PostScript, Fig, and SVG. Thus, it is possible to easily edit the final illustration in many available drawing programs.

PrIMETV… 

Regexp::Parser::Handlers 0.20 by Jeff Pinyan

Regexp::Parser::Handlers is a Perl module with handlers for Perl 5 regexes.

This module holds the init() method for the Regexp::Parser class, which installs all the handlers for standard Perl 5 regexes. This documentation contains a sub-classing tutorial.

SUB-CLASSING

I will present two exa… 

Tree::BPTree 1.07 by Andrew Sterling Hanenkamp

Tree::BPTree is a Perl implementation of B+ trees.

SYNOPSIS

use Tree::BPTree;

# These arguments are actually the defaults
my $tree = new Tree::BPTree(
-n => 3,
-unique => 0,
-keycmp => sub { $_[0] cmp $_[1] },
-valuecmp => sub { $_[0] $_[1] }… 

XML::Compile::Schema 0.05 by Mark Overmeer

XML::Compile::Schema is a Perl module to compile a schema.

INHERITANCE

XML::Compile::Schema
is a XML::Compile

SYNOPSIS

# preparation
my $parser = XML::LibXML->new;
my $tree = $parser->parse...(...);

my $schema = XML::Compile::Schema->new($tree);

my $schema = XML::Comp… 

CGI::Explorer 2.07 by Ron Savage

CGI::Explorer is a class to manage displaying a hash tree of data, for use in CGI scripts.

Synopsis

Install /assets/css/explorer/xtree.css, /assets/js/explorer/xtree.js, and /assets/images/explorer/*, as per the installation instructions, below.
Then run the demos example/bootstrap-hobbit.pl,… 

PHP pam_auth 0.4 by Chad Cunningham

PHP pam_auth is a basic extension to allow you to authenticate users using PHP via PAM. PHP pam_auth contains only one function, pam_auth(), which will return true or false. It is meant to provide simple authentication without hassle.

Requirements:
php 4.2 or later
pam capable OS

Installat… 

Bio::TreeIO::svggraph 1.4 by Brian Oconnor

Bio::TreeIO::svggraph is a simple output format that converts a Tree object to an SVG output.

SYNOPSIS

use Bio::TreeIO;
my $in = new Bio::TreeIO(-file => 'input', -format => 'newick');
my $out = new Bio::TreeIO(-file => '>output', -format => 'svggraph');

while( my $tree = $in->nex… 

SWTSwing 3.2.0004 by Christopher Deckers

SWTSwing is a port of the SWT graphical toolkit to Swing. SWTSwing project brings portability, a bridge between Swing and SWT components, look and feel support and much more!

Go to www.eclipse.org to find more information about SWT.

What's New in This Release:
Modifiers are not repeated when… 

libredblack 1.3 by Damian Ivereigh

libredblack is a library to provide the RedBlack balanced tree searching and sorting algorithm.

The algorithm was taken from the book "Introduction to Algorithms" by Cormen, Leiserson & Rivest. Frankly I never entirely understood it, but it most definately works!

What is the problem with norma… 

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