MaSuRCA¶
Description¶
MaSuRCA is whole genome assembly software. It combines the efficiency of the de Bruijn graph and Overlap-Layout-Consensus (OLC) approaches. MaSuRCA can assemble data sets containing only short reads from Illumina sequencing or a mixture of short reads and long reads (Sanger, 454).
Environment Modules¶
Run module spider masurca
to find out what environment modules are available for this application.
Environment Variables¶
- HPC_MASURCA_DIR - installation directory
- HPC_MASURCA_BIN - executable directory
Additional Usage Information¶
You can find the sample configuration file sr_config_example.txt
is available in the $HPC_MASURCA_CFG
directory.
A superreads.pl
script distributed by the Stringtie project and modified for use on HiPerGator is available starting with masurca/3.2.1.
Citation¶
If you publish research that uses masurca you have to cite it as follows:
Zimin, A. et al. The MaSuRCA genome Assembler. Bioinformatics (2013). doi:10.1093/bioinformatics/btt476
Categories¶
biology, alignment