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Pynteny: synteny-aware HMM searches made easy

Pynteny is a Python package to query sequence databases for synteny blocks through Hidden Markov Models (HMMs). It can be run in a command line interface or through a graphical interface. The command line tool is more complete and is intended to be employed in remote servers, whereas the graphical interface runs locally and may be easier to handle for some users (also intended for educational purposes).

These are the available subcommands, run as pynteny <subcommand> <options>:

• search
• build
• download
• parse
• tests
• app