A Post-assembly genome-improvement toolkit (PAGIT) to obtain annotated genomes from contigs
PAGIT addresses the need for software to generate high quality draft genomes. It is based on a series of progra...e. IMAGE, an iterative approach for closing gaps in assembled genomes using mate pair infor...2592 days ago
CABOG: Celera Assembler with Best Overlap Graph
...ical component of many genome sequencing projects. CABOG operate...fundamental limitation of all sequencing machines, namely, that they r...from first-generation Sanger sequencing machines and second-generatio...ms for data sets that include paired end data from the Roche 454 line...2589 days ago
GAM-NGS: genomic assemblies merger for next generation sequencing
GAM-NGS is a tool able to merge two or more assemblies in order to improve contiguity and correctness. It can be used on all NGS-based assembly projects and it shows its...2585 days ago
Pollux: platform independent error correction of single and mixed genomes
Pollux: General-purpose error corrector that corrects e...introduced by Illumina, Ion Torrent, and Roche 454 sequencing technologies and can be appli...while remaining sensitive to low coverage areas of sequencing projects. Using published dat...2585 days ago
2584 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 co...2581 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 u...GRASS with existing HTS scaffolders using Illumina paired reads of three bacterial genomes....2581 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 ass...bioinformaticians to assemble bacterial genomes sequenced with NextGeneration Sequencing (NGS) platforms quickly, easi...2581 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 alignmen...2580 days ago
Grinder / Biogrinder - A versatile omics shotgun and amplicon sequencing read simulator
Grinder is a versatile program to create...n and amplicon datasets from current sequencing technologies such as Sa...fic hypothesis, e.g. with or without sequencing errors, or with low or high c...project, e.g. should the library be paired-end or not, how many reads should...2580 days ago