Bio Rhythm App

App::SimpleScan::Plugin::LinkCheck is a Perl module with link counting/presence/absence plugin. SYNOPSIS # After this plugin is installed: %%has_link My stuff %%no_link Send email # The has_link and no_link checks will run for every test spec. http://someplace.com /foo/ Y Got my page...

Bio::Tools::Run::PiseApplication::fasta is a Bioperl class for sequence database search. Parameters: fasta (Excl) Fasta program query (Sequence) Query sequence File pipe: seqfile seqtype (Excl) Is it a DNA or protein sequence (-n) protein_db (Excl) Protein Database nucleotid_db...

Bio::Tools::Run::PiseApplication::charge is a Perl module. Bio::Tools::Run::PiseApplication::charge Bioperl class for: CHARGE Protein charge plot (EMBOSS) Parameters: (see also: http://bioweb.pasteur.fr/seqanal/interfaces/charge.html for available values): charge (String) init...


Platforms: *nix

Bio::Biblio is a Bibliographic Query Service module. SYNOPSIS use Bio::Biblio; my $biblio = new Bio::Biblio; print $biblio->find (perl)->get_count . "n"; my $collection = $biblio->find (brazma, authors); while ( $collection->has_next ) { print $collection->get_next; } #The new()...


Platforms: *nix

SDL::App::FPS is a framework for event-driven SDL games/applications. SYNOPSIS Subclass SDL::App::FPS and override some methods: package SDL::App::MyFPS; use strict; use SDL::App::FPS; use SDL; use base qw/SDL::App::FPS/; # override the method draw_frame with something to draw sub...


Platforms: *nix

Wireless Transfer App for Mac lets you easily and quickly download photos and videos from iPad/iPhone/iPod touch to Mac as well as upload photos and videos from Mac to iOS devices via WiFi. This app requires the iOS version of Wireless Transfer App be installed and running on your...


Platforms: Mac

Wireless Transfer App for Windows enables you to transfer photos and videos from iPhone/iPad/iPod touch to PC as well as upload photos and videos from PC to iPhone/iPad/iPod touch via WiFi with ease and speed. It requires that the iOS version of Wireless Transfer App be installed and running on...


Platforms: Windows

Bio::Tools::Run::PiseApplication::consensus is a Perl module. Bioperl class for: CONSENSUS Identification of consensus patterns in unaligned DNA and protein sequences (Hertz, Stormo) References: G.Z. Hertz and G.D. Stormo. Identification of consensus patterns in unaligned DNA and protein...


Platforms: *nix

Bio::Index::Swissprot is a Perl Interface for indexing (multiple) Swissprot .dat files (ie flat file swissprot format). SYNOPSIS # Complete code for making an index for several # Swissprot files use Bio::Index::Swissprot; use strict; my $Index_File_Name = shift; my $inx =...


Platforms: *nix

Bio::Graphics::Feature is a simple feature object for use with Bio::Graphics::Panel. SYNOPSIS use Bio::Graphics::Feature; # create a simple feature with no internal structure $f = Bio::Graphics::Feature->new(-start => 1000, -stop => 2000, -type => transcript, -name => alpha-1...


Platforms: *nix

CGI::Ex::App is a anti-framework application framework. Fill in the blanks and get a ready made web application. This module is somewhat similar in spirit to CGI::Application, CGI::Path, and CGI::Builder and any other "CGI framework." As with the others, CGI::Ex::App tries to do as much of the...


Platforms: *nix

Bio::Graphics::Glyph::alignment is the "alignment" glyph. SYNOPSIS See L< Bio::Graphics::Panel > and L< Bio::Graphics::Glyph >. This is identical to the "graded_segments" glyph, and is used for drawing features that consist of discontinuous segments. The color intensity of each segment is...


Platforms: *nix

App::perlstyle is a App::Context Perl Style Guide. The following document describes some of the coding standards used in writing the App::Context framework (App-Options, App-Context, App-Repository, App-Widget, and other minor distributions). This document exists for two purposes: 1. To...


Platforms: *nix

App::UserAgent - the browser this session is connected to. SYNOPSIS # ... official way to get a UserAgent object ... use App; $context = App->context(); $user_agent = $context->user_agent(); # get the user_agent if ($user_agent->supports("html.input.style")) { # do something } A...


Platforms: *nix

Bio::NEXUS::HistoryBlock is a Perl module that represents a HISTORY block of a NEXUS file. SYNOPSIS $block_object = new Bio::NEXUS::HistoryBlock(history, $block, $verbose); This is a class representing a history block in NEXUS file METHODS new Title : new Usage : block_object = new...


Platforms: *nix

Bio::Graphics::Panel is a Perl module to generate GD images of Bio::Seq objects. SYNOPSIS # This script parses a GenBank or EMBL file named on the command # line and produces a PNG rendering of it. Call it like this: # render.pl my_file.embl | display - use strict; use Bio::Graphics;...


Platforms: *nix

Bio::Graphics::FeatureFile is a set of Bio::Graphics features, stored in a file. SYNOPSIS use Bio::Graphics::FeatureFile; my $data = Bio::Graphics::FeatureFile->new(-file => features.txt); # create a new panel and render contents of the file onto it my $panel = $data->new_panel; my...


Platforms: *nix

Bio::Phylo::Manual is a Perl module that contains a Bio::Phylo v.0.14 user guide. This is the manual for Bio::Phylo. Bio::Phylo is a perl5 package for phylogenetic analysis. For installation instructions, read the README file in the root directory of the distribution. The stable URL for the...


Platforms: *nix

Bio::NEXUS::Node is a Perl module that provides functions for manipulating nodes in trees. SYNOPSIS new Bio::NEXUS::Node; METHODS new Title : new Usage : $node = new Bio::NEXUS::Node(); Function: Creates a new Bio::NEXUS::Node object Returns : Bio::NEXUS::Node object Args : none...


Platforms: *nix

Bio::ConnectDots::ConnectDots is a top level class for connect-the-dots. SYNOPSIS use Bio::ConnectDots::DB; use Bio::ConnectDots::ConnectDots; my $db=new Bio::ConnectDots::DB(-database=>test, -host=>computername, -user=>usename, -password=>secret); my $cd=my $cd=new...


Platforms: *nix