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Default parameters are set conservatively
pb-jlandolin edited this page Mar 7, 2013
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pacBioToCA and Celera Assembler require modified parameters for optimal performance on large genomes.
The default parameters in the pacbio.spec file are set conservatively for resource usage due to the variety of possible deployments.
For large genomes ( > 100 Mb), we recommend an SGE grid or a high-memory machine (256 GB of RAM) plus fine tuning of the ovl* settings in the pacbio.spec file for optimal performance.