platanus¶
Description¶
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