2541 days ago
2540 days ago
npScarf: Scaffolding and Completing Assemblies in Real-time Fashion
npScarf (jsa.np.npscarf) is a program that scaffolds and completes draft genomes assemblies in real-time with Oxford Nanopore sequencing. The pipeline can run on a computing cluste...2539 days ago
GRASS: a generic algorithm for scaffolding next-generation sequencing assemblies.
GRASS (GeneRic ASsembly Scaffolder)-a novel algorithm for scaffolding second-generation sequencing assemblies capable of using diverse information sources. GRASS offers a mixed-integer...2539 days ago
SIMBA: a web tool for managing bacterial genome assembly generated by Ion PGM sequencing technology
SIMBA, SImple Manager for Bacterial Assemblies, is a Web interface for managing assembly projects of bacterial genomes. SIMBA was created to assist bioinformaticians to assemble bacteri...2539 days ago
SuRankCo: supervised ranking of contigs in de novo assemblies
SuRankCo is a machine learning based software to score and rank contigs from de novo assemblies of next generation sequencing data. It trains with alignments of contigs with known refer...2538 days ago
AVID: A Global Alignment Program
...equence alignments of large genomic regions up to megabases long. We present numerous applications of the method, ranging from the comparison of assemblies to alignment of large synteni...2538 days ago
GraphMap - A highly sensitive and accurate mapper for long, error-prone reads
...s an overlapper in a new de novo genome assembly project called Ra (https://github.com/mariokostelac/ra-integrate).Ra attempts to create de novo assemblies from raw nanopore and PacBio...2524 days ago
Omega2: metagenome assembly pipeline
...00-bp dataset and superior performance on a MiSeq 300-bp dataset. In comparison with Celera on the MiSeq dataset, Omega provided more continuous assemblies overall using a fraction of t...2491 days ago
Unicycler: Hybrid assembly pipeline for bacterial genomes
...It can also assembly long-read-only sets (PacBio or Nanopore) where it runs a miniasm+Racon pipeline. For the best possible assemblies, give it both Illumina reads&...2368 days ago