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Software - Open Source:
Automated Sequence Annotation Pipeline (ASAP)

Now available - Version II
 

Synopsis:

ASAP is designed to ease routine investigation of new functional annotations on unknown sequences, such as expressed sequence tags (ESTs), through querying of web-accessible databases. A simple database is used to store query formats and parameters, as well as information for parsing data from web sites. The source code is released under the GNU general public license (GPL).

Notes:

• The new version has
  • New plan writing methods
  • More complete administration functions
  • Improved documentation on plan writing
• The UniGene interface has recently changed, as a result changes have been made in scripts to accommodate these changes.
   If you downloaded ASAP prior to 28-March 2003 please download the updated version.

Download:

Documentation:

• User's Guide
• Administration Guide
• Installation Guide
• Releases
• FAQ
• Use Case
• DB Schema
   
• Earlier versions
  • ASAP system. Documentation - Version 1.0 (pdf)

Reference:

• Andrew Kossenkov, Frank J. Manion, Eugene Korotkov , Thomas D. Moloshok and Michael F. Ochs (2003)
  ASAP: automated sequence annotation pipeline for web-based updating of sequence information with a local dynamic database. Bioinformatics 19(5): 675–676.
  

Contact Information:

Sinoula Apostolou
Biostatistics and Bioinformatics Facility
Fox Chase Cancer Center
Philadelphia, PA