Computational protocol: RF-Cloning.org: an online tool for the design of restriction-free cloning projects

Similar protocols

Protocol publication

[…] RF-Cloning.org runs on a standard LAMP configuration (Debian 6.0 ‘Squeeze’ web server, Apache2, MySQL and PHP), and the user interface has been successfully tested on Firefox 3+, Opera 9+, Safari 3+, Internet Explorer 9+ and Chrome web browsers, on Windows XP/Vista/7, Debian based distributions of Linux and Mac OS-X. All critical functionality of the site is also present when using Internet Explorer 7 and 8, but due to incomplete support of the SVG web standard by these older browsers, they are unable to download the Savvy plasmid maps. Many features of RF-Cloning.org communicate with the web server via asynchronous JavaScript calls, so JavaScript support must be enabled at all times. Common gateway interface scripts are implemented in PHP, Perl [using pre-existing BioPerl modules ()], and C++ [select components of the BLAST+ suite, version 2.2.24, NCBI C++ toolkit ()]. For those wishing to access the RF-Cloning design algorithm directly from custom scripts, we have included a SOAP server to accept incoming XML requests (http://www.rf-cloning.org/classes/rf_cloning_server.php). The affiliated WSDL file and sample SOAP clients can be downloaded from http://www.rf-cloning.org/soap_server.php. […]

Pipeline specifications

Software tools savvy, BioPerl
Application Synthetic biology