Omega2: metagenome assembly pipeline
...Celera on the MiSeq dataset, Omega provided more continuous assemblies overall using a fraction of the computing time of existing overlap-layout-consensus assemblers. This indicates Om...2488 days ago
2488 days ago
miniasm: very fast OLC-based de novo assembler for noisy long reads
...instream assemblers, miniasm does not have a consensus step. It simply concatenates...are broadly comparable. Of course, the HGAP3 consensus sequences are much more accur...Coupled with long-read error correctors and consensus tools, miniasm may also be us...2348 days ago
Oxford Nanopore Sequencing, Hybrid Error Correction, and de novo Assembly of a Eukaryotic Genome
...ccurate: the contig N50 length is more than ten-times greater than an Illumina-only assembly (678kb versus 59.9kbp), and has greater than 99.88% consensus identity when compared to the...2346 days ago
Delta: a new Web-based 3D genome visualization and analysis platform
...ts the topologically associating domains and chromatin loops in the genome. It then generates a physical 3D model which represents the plausible consensus 3D structure of the genome.&n...2325 days ago
proovread : large-scale high-accuracy PacBio correction through iterative short read consensus
proovread : large-scale high-accuracy PacBio correction through iterative short read consensus outperforms PacBioToCA/LSC in terms of accuracy and contiguity/sensitivity (http://dx....2309 days ago
HINGE: Long-Read Assembly Achieves Optimal Repeat Resolution
.../5/747.full An ipython notebook to reproduce results in the paper can be found in this repository. HINGE is an OLC(Overlap-Layout-Consensus) assembler. The idea of the p...2276 days ago
Metassembler: merging and optimizing de novo genome assemblies
Metassembler combines multiple whole genome de novo assemblies into a combined consensus assembly using the best segments of the individual assemblies. Genome assembly projects typica...2186 days ago
GLEAN: an unsupervised learning system to integrate disparate sources of gene structure evidence
GLEAN is an unsupervised learning system to integrate disparate sources of gene structure evidence (gene model predictions, EST/protein genomic sequence alignments, SAGE/peptide tags, etc) to produce a consensus gene prediction, without prior training.2161 days ago
Nanopolis: polish a genome assembly
...Oxford Nanopore sequencing data. Nanopolish can calculate an improved consensus sequence for a draft genome a...). Quickstart http://nanopolish.readthedocs.io/en/latest/quickstart_consensus.html Algorithms http://simp...2107 days ago