Pollux: platform independent error correction of single and mixed genomes
Pollux: General-purpose error corrector that corrects errors introduced by Illumina, Ion Torrent, and Roche 454 sequencing technologies and can be applied to single-...2607 days ago
2606 days ago
npScarf: Scaffolding and Completing Assemblies in Real-time Fashion
...e analysis of positional information such as gene ordering and the detection of genes from mobile elements (plasmids and genomic islands). Complete paper at https://www.ncbi.n...2603 days ago
GRASS: a generic algorithm for scaffolding next-generation sequencing assemblies.
...olding second-generation sequencing assemblies capable of using diverse informati...ing approximation of the original problem. We compared GRASS with existing HTS sc...bacterial genomes. Our algorithm constructs a comparable number of scaffolds, but...2603 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...2603 days ago
Grinder / Biogrinder - A versatile omics shotgun and amplicon sequencing read simulator
...y diversity. Grinder may also be used to help decide between alternative sequencing methods for a sequence-based project, e.g. should the library be paired-end or not, how many read...2602 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 conti...2602 days ago
AVID: A Global Alignment Program
...applications of the method, ranging from the comparison of assemblies to alignme...nments. We have also performed a quantitative comparison of AVID with other popul...The tools we have developed for the alignment comparisons, as well as the AVID pr...2602 days ago
Synteny Portal: a web-based application portal for synteny block analysis
...asy-to-use web-based interface. We believe that Synteny Portal will serve as a highly valuable tool that will enable biologists to easily perform comparative genomics studies by com...2602 days ago
dbCAN: a web server and DataBase for automated Carbohydrate-active enzyme ANnotation
...based on the family classification from CAZy database while it has the following unique features compared with CAZy database and CAT: dbCAN provides the capability of automated and c...2597 days ago