Latest release offers two diploid resolution modes – one reporting a single mosaic haplotype, best used with diploid genomes with low heterozygosity, and the second mode designed for highly heterozygous genomes, which attempts to reconstruct both haplomes at once.
Distributed and scalable assembler for eukaryotic genomes.
Meraculous is a whole genome assembler for Next Generation Sequencing data geared for large genomes. It is a hybrid k-mer/read-based assembler that capitalizes on the high accuracy of Illumina sequence by eschewing an explicit error correction step which we argue to be redundant with the assembly process. Meraculous achieves high performance with large datasets by utilizing lightweight data structures and multi-threaded parallelization, allowing to assemble human-sized genomes on commodity clusters in under a day. The process pipeline implements a highly transparent and portable model of job control and monitoring where different assembly stages can be executed and re-executed separately or in unison on a wide variety of architectures.
Jarrod Chapman, Isaac Ho, Eugene Goltsman, and Daniel Rokhsar.
Software and Documentation
Meraculous on ArXiv:
For more information, contact Eugene Goltsman