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SYNY

The SYNY pipeline investigates synteny between genomes. The bundle packages version 1.3.0.

Usage example

The following command can be executed in the terminal to load the bundle:

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module load syny

The module makes the following commands available:

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check_mp_colors.py
fasta_to_gbff.pl
gff3_to_gbff.pl
jgi_to_ncbi_gff.pl
orient_fastas_to_reference.py
run_syny.pl

The syny_shell command can be used to access a shell in the bundle.

Run pet list -t syny for a list of examples.

Performance notes

No performance notes available

SYNY should be run on a system with at least 128 GB of RAM and 16 threads.

Benchmarks

No benchmarks available.

Community guides and tutorials

  • No community guides available.

Official site and documentation

Licensing information

SYNY is licensed under the MIT license.

Primary citation

SYNY: a pipeline to investigate and visualize collinearity between genomes Alexander Thomas Julian, Jean-François Pombert doi

External guides and resources

  • If you know of a guide/tutorial that you have found useful, please help us share it by contacting the HPC staff at hpc@ufs.ac.za