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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.

This module includes the following platanus executables: * Platanus Assembler * Platanus-alle (Platanus2) * Pltanus_trim * MetaPlatanus * BactSNP

Environment Modules

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

Environment Variables

  • HPC_PLATANUS_DIR - installation directory
  • HPC_PLATANUS_BIN - executable directory

Additional Usage 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. (2014). Efficient de novo assembly of highly heterozygous genomes from whole-genome shotgun short reads. Genome Research, 24(8), 1384-1395. https://doi.org/10.1101/gr.170720.113

Categories

phylogenetics