2555 days ago
2553 days ago
GRASS: a generic algorithm for scaffolding next-generation sequencing assemblies.
GRASS (GeneRic ASsembly Scaffolder)-a novel algorithm for scaffolding second-generati...problem. We compared GRASS with existing HTS scaffolders using Illumina paired reads of three bacterial genomes. O...2552 days ago
Grinder / Biogrinder - A versatile omics shotgun and amplicon sequencing read simulator
Grinder is a versatile program to create random shotgun and amplicon sequence librari...sequence-based project, e.g. should the library be paired-end or not, how many reads should be sequenced....2551 days ago
GraphMap - A highly sensitive and accurate mapper for long, error-prone reads
GraphMap - A highly sensitive and accurate mapper for long, error-prone reads http://www.nature.com/ncomms/...ed). Overlapping of reads for de novo assembly. &n...semblies from raw nanopore and PacBio reads without requiring error corre...2537 days ago
Omega2: metagenome assembly pipeline
Omega found overlaps between reads using a prefix/suffix hash table. The overlap graph of reads was simplified by removing transitive edges and trimming...ates Omega can more efficiently assemble longer Illumina reads, and at deeper coverage, for...2504 days ago
2504 days ago
Meraculous: De Novo Genome Assembly with Short Paired-End Reads
We describe a new algorithm, meraculous, fo...ome assembly of deep paired-end short reads, and apply it to the assembly...of a dataset of paired 75-bp Illumina reads derived from the 15.4 megabas...are ordered and oriented using paired reads separated by ∼280 bp or &...2384 days ago
QuorUM: An Error Corrector for Illumina Reads
Illumina Sequencing data can provide high c...y short (most often 100 bp to 150 bp) reads at a low cost. Even with low...ow-count erroneous k-mers in the reads. However, there is enough inf...ly aimed at error correcting Illumina reads for subsequent assembly. It i...2383 days ago
Unicycler: Hybrid assembly pipeline for bacterial genomes
Unicycler is an assembly pipeline for bacterial genomes. It can assemble ...n pipeline. For the best possible assemblies, give it both Illumina reads and long reads, and it will conduct a hybrid...2381 days ago