GRASS: a generic algorithm for scaffolding next-generation sequencing assemblies.
...programming approximation of the original problem. We compared GRASS with existing HTS scaffolders using Illumina paired reads of three bacterial genomes. Our algorithm constructs a c...2553 days ago
SIMBA: a web tool for managing bacterial genome assembly generated by Ion PGM sequencing technology
...mblies, is a Web interface for managing assembly projects of bacterial genomes. SIMBA was created to assist bioinformaticians to assemble bacterial genomes sequenced with NextGeneration...2553 days ago
SuRankCo: supervised ranking of contigs in de novo assemblies
...e to score and rank contigs from de novo assemblies of next generation sequencing data. It trains with alignments of contigs with known reference genomes and predicts scores and ranki...2552 days ago
dbCAN: a web server and DataBase for automated Carbohydrate-active enzyme ANnotation
...in all the relevant full-length CAZyme proteins in all sequenced genomes; dbCAN provides the most com...sents the first step towards discovering novel CAZyme catalysts in metagenomes; dbCAN provides a subfa...2547 days ago
Genome Annotation Transfer Utility (GATU)
...) was designed to facilitate quick, efficient annotation of similar genomes using genomes that have already been annota...ell as mature peptides. Although it was designed for use with viral genomes, GATU can also be used to hel...2547 days ago
CoreTracker, a codon reassignment tracker
...vidences of codon reassignment from the protein repertoire of a set of genomes by successively applying diff...a filtering approach that explore all possible reassignments in every genomes from the input set, and retai...2516 days ago
2501 days ago
MGRA: Breakpoint graphs and ancestral genome reconstructions
...a tool for reconstruction of ancestor genomes and evolutionary history of extant genomes. It takes as an input a set...produces such sequences for ancestral genomes at the internal nodes of the...me rearrangements and allows the input genomes to have different gene conten...2490 days ago
2489 days ago
Web Apollo: a web-based genomic annotation editing platform
...technology is that there are more and more researchers sequencing new genomes. These researchers require tools to describe the functional features of their newly sequenced genomes. With Web Apollo researchers...2487 days ago