Sybil: Web-based software for comparative genomics

If you haven't done so already, take a look at the screenshots on the home page.

There are currently two sybil demonstration websites. One utilizes an older codebase but is still functional and the other represents the newest codebase (as of January 2008).

The first Sybil demonstration site is available at the JCVI:

• home page
• highlights
• help

The above demo site runs on the same sample database and Sybil interface code that is available for download from this site. The sample database contains genome and comparative data from the following three organisms:

• Plasmodium falciparum
• Plasmodium yoelii
• Cryptosporidium parvum

In addition, the following analyses have been run and preloaded into the database:

• All-vs-all BLASTP
• Jaccard clustering analysis (input = all P. falciparum proteins)
• Jaccard clustering analysis (input = all P. yoelii proteins)
• Jaccard clustering analysis (input = all C. parvum proteins)
• Jaccard-filtered COG analysis (input = all of the above Jaccard clusters)

To download and install the same database and software used on the demonstration site, follow the installation instructions on the Downloads page.

Links to demonstration sybil web site at IGS:

• home page
• cluster list
• help

The above site runs on a data set containing 10 Streptococcus pneumoniae genomes:

• Streptococcus pneumoniae TIGR4
• Streptococcus pneumoniae D39
• Streptococcus pneumoniae 70585
• Streptococcus pneumoniae JJA
• Streptococcus pneumoniae R6
• Streptococcus pneumoniae G54
• Streptococcus pneumoniae Taiwan19F-14
• Streptococcus pneumoniae P1031
• Streptococcus pneumoniae Hungary19A-6
• Streptococcus pneumoniae 670

In addition, the following analyses have been run and preloaded into the database:

• All-vs-all BLASTP
• Jaccard clustering analysis (input = all P. falciparum proteins)
• Jaccard clustering analysis (input = all P. yoelii proteins)
• Jaccard clustering analysis (input = all C. parvum proteins)
• Jaccard-filtered COG analysis (input = all of the above Jaccard clusters)

This data set and the associated code will be available for download shortly.