eQuant : energy-based quality assessment of protein
...odel. The overall quality is calculated as well as the reliability of individual residues. You can submit single PDB files or archives containing a set of proteins. https://bioscie...2538 days ago
2537 days ago
CoreTracker, a codon reassignment tracker
...detects evidences of codon reassignment from the protein repertoire of a set of genomes by successively ap...that explore all possible reassignments in every genomes from the input set, and retain only the most pro...2533 days ago
MGRA: Breakpoint graphs and ancestral genome reconstructions
...Rearrangements and Ancestors) is a tool for reconstruction of ancestor genomes and evolutionary history of extant genomes. It takes as an input a set of genomes represented as seq...2508 days ago
LIBSVM -- A Library for Support Vector Machines
...s classification. Since version 2.8, it implements an SMO-type algorithm proposed in this paper:R.-E. Fan, P.-H. Chen, and C.-J. Lin. Working set selection using second order...2500 days ago
2390 days ago
miniasm: very fast OLC-based de novo assembler for noisy long reads
...PacBio and Oxford Nanopore (ONT) bacterial data sets. Including the mapping step,...assemble a bacterial genome. Under the default setting, miniasm assembles 9 out...h more accurate. In addition, on the whole data set (assembled in ~30 min), the m...2383 days ago
RITA: Rapid identification of high-confidence taxonomic assignments for metagenomic data
...e classified, RITA uses a pipeline to first identify cases where both types of classifier are in agreement, which constitute the highest-confidence set. Sequences not classified in...2383 days ago
NanoSim: nanopore sequence read simulator based on statistical characterization.
...sequencing technology. The first step of NanoSim is read characterization, which provides a comprehensive alignment-based analysis and generates a set of read profiles serving as t...2362 days ago
MeDuSa: a multi-draft based scaffolder
...ithm for genome scaffolding. MeDuSa exploits information obtained from a set of (draft or closed) genomes...ers, it does not require either prior knowledge on the microrganisms dataset under analysis (e.g. their ph...2304 days ago