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IMPORTANT: Meraculous-2D has been superseded by the HipMer assembler, available here: https://sourceforge.net/projects/hipmer/
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Meraculous-2D is a whole genome assembler for NGS reads (Illumina) that is capable of assembling large, diploid genomes with modest computational requirements. Features include:
- Efficient k-mer counting and deBruijn graph traversal
- Two modes of handling of diploid allelic variation
- Improved scaffolding that produces more complete assemblies without compromising scaffolding accuracy.
The assembly is driven by a perl pipeline which performs data fragmentation and load balancing, as well as submission and monitoring of multiple task arrays on a GE/SLURM-type cluster or a standalone multi-core server.
Manuscripts in submission:
https://arxiv.org/abs/1703.09852
https://arxiv.org/abs/1608
Features
- Eukaryotic Genome Assembly
- Specialized modes for high- and low-heterozygosity genomesembly
- Built-in distributed execution
- Efficient k-mer space operations
- Single-server and cluster-ready deployment (AWS-ready)
Project Samples
