ONT assembly and Illumina polishing pipeline
This pipeline performs the following steps: Assembly of nanopore reads using Canu. Polish can...e previous steps using BWA mem. Perform correction of contigs using pilon&n...2410 days ago
miniasm: very fast OLC-based de novo assembler for noisy long reads
...nbsp;assembler for noisy long reads. It takes all-vs-all read self-mappings (typically by&nbs...enerate long contigs from raw PacBio or ONT reads without error correction. It also shows that mini...isy reads, they do not have a correction or consensus step, and theref...2406 days ago
Opera: An optimal genome scaffolding program
Opera (Optimal Paired-End Read Assembler) is a sequence assembly program (http://en.wi...nbsp;). It uses information from paired-end or long reads to optimally order and orient contigs assembled from shotgun-sequencing reads.An u...2406 days ago
Oxford Nanopore Sequencing, Hybrid Error Correction, and de novo Assembly of a Eukaryotic Genome
...cifically for Oxford Nanopore reads, as existing packages were i...apable of assembling the long read lengths (5-50kbp) at such hig...ble to perform a hybrid error correction of the nanopore reads using c...sembly with the long nanopore reads presents a much more complete repr...2404 days ago
2404 days ago
Musket: a multistage k-mer spectrum based corrector
Musket is a well-established leading next-generation sequencing read error correction algorithm targetting Il...ctrum approach and introduces three correction techniques in a multistage wo...ors. In addition, Musket is multi-threaded using a master-slave model and de...2397 days ago
2395 days ago
2391 days ago
NanoSim: nanopore sequence read simulator based on statistical characterization.
NanoSim, a fast and scalable read simulator that captures the technology-specific feat...sequencing technology. The first step of NanoSim is read characterization, which provi...ive alignment-based analysis and generates a set of read profi...2385 days ago
Meraculous: Haplotype-sensitive Assembly of Highly Heterozygous genomes.
Meraculous is a whole genome assembler for N...r large genomes. It is a hybrid k-mer/read-based assembler that capitali...quence by eschewing an explicit error correction step which we argue to...ghtweight data structures and multi-threaded parallelization, allowing to asse...2383 days ago