Minnesota Supercomputing Institute
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Wednesday, December 7, 2016
The GenomeTools genome analysis system is a free collection of bioinformatics tools (in the realm of genome informatics) combined into a single binary. It is based on a C library named “libgenometools” which consists of several modules.
To load this software in a Linux environment run the commands:
module load genometools
To use a software tool contained in GenomeTools, such as LTRharvest, enter the command:
gt ltrharvest <input_commands>
Here ltrharvest is used as an example of one possible software tool, and <input_commands> stands for the appropriate input commands the user has chosen for use with the tool.
To obtain a list of all tools in GenomeTools, enter the command
The individual tools implement a -help option. For example, to learn the options accepted by LTRharvest, enter the command:
gt ltrharvest -help
The software tools included in GenomeTools are:
GenomeTools is freely availabe at http://genometools.org/ . This website also contains information on the included software tools and their use.