Platanus

Description

platanus website  

Platanus is a novel de novo sequence assembler that can reconstruct genomic sequences of highly heterozygous diploids from massively parallel shotgun sequencing data.

Environment Modules

Run module spider platanus to find out what environment modules are available for this application.

System Variables

• HPC_{{#uppercase:platanus}}_DIR - installation directory
• HPC_{{#uppercase:platanus}}_BIN - exectuable directory

Additional Information

This module includes the following platanus executables:

• Platanus Assembler
• Platanus-alle (Platanus2)
• Pltanus_trim
• MetaPlatanus
• BactSNP

Citation

If you publish research that uses platanus you have to cite it as follows:

Kajitani R, Toshimoto K, Noguchi H, Toyoda A, Ogura Y, Okuno M, Yabana M, Harada M, Nagayasu E, Maruyama H, Kohara Y, Fujiyama A, Hayashi T, Itoh T, “Efficient de novo assembly of highly heterozygous genomes from whole-genome shotgun short reads”. Genome Res. 2014 Aug;24(8):1384-95. doi: 10.1101/gr.170720.113.