Download BioCyc Databases and Pathway Tools SoftwareWe provide several types of downloadable materials for the BioCyc databases and Pathway Tools software.
Access to the BioCyc.org website and to BioCyc data files requires a paid BioCyc subscription, obtained from Phoenix Bioinformatics (although access to the EcoCyc and MetaCyc data files is free). Access to the Pathway Tools software is free to academic users and is available for a fee to commercial users (obtained from SRI International).
Download BioCyc Data Files[Access to BioCyc data files requires (1) a license (see bottom of page), and (2) a paid BioCyc subscription (exceptions: access to the EcoCyc and MetaCyc data files is free, and access to two year old versions of all BioCyc data files is free; in both cases a license is required).]
Note that the BioCyc web-based SmartTables facility can save you significant time in answering large-scale data analysis questions, and is significantly easier to use than is downloading and parsing BioCyc files. See the SmartTables menu.
Click here for an exact listing of files provided and their formats.
Programmatic Access to BioCyc Data[Access to BioCyc data via APIs requires a paid BioCyc subscription (although access to the EcoCyc and MetaCyc data are free).]
We provide several APIs for accessing BioCyc data:
Download EcoCyc iPad and iPhone ApplicationsiPad and iPhone applications for BioCyc are available from the iTunes store.
These apps provides a streamlined mobile interaction to BioCyc databases, and to databases in other Pathway Tools based web servers. Access these database in the laboratory, in the classroom, at a conference, in the library, or while on travel.
Download Pathway Tools Software/Database Bundle[Access to Pathway Tools requires a license (see bottom of page) and is freely available to academic users and available for a fee to commercial users. Use of Pathway Tools with subscription-only BioCyc databases, whether via the registry or via pre-built bundles, requires a paid BioCyc subscription for all users. ]
The software/database bundle is a program you install on your computer (Mac, PC, Linux) that combines the Pathway Tools software with sets of BioCyc databases. Program functionality includes:
A number of publications are available about Pathway Tools.
The software/database bundle can be downloaded with several alternative collections of Pathway/Genome Databases (PGDBs) including:
If you want to use Pathway Tools with other PGDBs than the pre-built bundles listed above, you should download the bundle that is closest to your needs, and then download additional PGDBs from the PGDB registry using the Tools menu command Browse PGDB Registry.
How to Obtain DownloadsThe software and databases are available through different license agreements; please choose the license that is best suited to your needs:
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