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DISCOVAR and DISCOVAR de novo - genome assembly
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DISCOVAR de novo is a whole-genome shotgun assembler targetting 250-base Illumina PCR-free fragment reads. (A companion program DISCOVAR, for variant calling and assembling small genomes has not been installed.)
The software is free to use, but, you are encouraged to register. License and registration details are on the download page at the DISCOVAR site.
The software has been installed in /global/software/discovar/discovardenovo_52488/bin, with the main executable being DiscovarDeNovo. To run that program, set up your environment with a module command:
module load discovar/52488
DiscovarDeNovo NUM_THREADS=$PBS_NUM_PPN <other_arguments>
To see all the command line arguments, use the --help special argument:
DiscovarDeNovo --help special
There is very limited documentation in /global/software/discovar/discovardenovo_52488/share/doc/discovardenovo .
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2015-12-01 - Created page.