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MaSuRCA - whole genome assembler
MaSuRCA (Maryland Super-Read Celera Assembler) is a whole-genome assembly package that can combine short and long reads from different sequencing hardware. Underlying software includes Jellyfish (k-mer counter), a modified version of the Celera assembler, SuperReads (method for extending short reads) and QuorUM (error corrector for Illumina data).
(Note that a more recent version of the Celera assembler that that packaged with MaSuRCA is available on several WestGrid systems. See the Celera Whole-Genome Shotgun Assembler page.)
Running MaSuRCA on Breezy
MaSuRCA requires a newer version of Perl than the default on Breezy.
To set up your environment (bash shell example) prior to running MaSuRCA, use:
module load python/2.7.2
The MaSuRCA binaries have been installed in /global/software/masurca/masurca210/bin .