2630 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 d...TS scaffolders using Illumina paired reads of three bacterial genomes. Our algori...2552 days ago
GeneProf: analysis of high-throughput sequencing experiment
GeneProf is a web-based, graphical software suite that allows users to analyse data produced using high-throughput se...parent (cp. Tutorial 'Examining Public Next-Gen Data..'). Extensibility:Algori...2508 days ago
MOSS: A System for Detecting Software Similarity
Moss (for a Measure Of Software Similarity) is an automatic system for determining the sim...94, Moss has been very effective in this role. The algorithm behind moss is a significant improvement over other cheating detection algori...2352 days ago
LIBSVM -- A Library for Support Vector Machines
LIBSVM is an integrated software for support vector classification, (C-SVC, nu-SVC), regression (epsilon-SV...rts multi-class classification. Since version 2.8, it implements an SMO-type algori...2481 days ago
Meraculous: De Novo Genome Assembly with Short Paired-End Reads
We describe a new algorithm, meraculous, for whole genome assembly of deep paired-end short reads, and apply it to the assembly of a dataset of paired 75-bp Illumina re...2384 days ago
CHSMiner: a GUI tool to identify chromosomal homologous segments
Background The identification of chromosomal homologous segments (CHS) within and between genomes is essential for...cts CHSs based on shared gene content alone. It implements fast greedy search algori...2372 days ago
poRe: an R package for the visualization and analysis of nanopore sequencing data
Motivation: The Oxford Nanopore MinION device represents a unique sequencing techn...ions. To enable these applications, the bioinformatics community will need to design and build a suite of tools sp...2368 days ago
Oxford Nanopore Sequencing, Hybrid Error Correction, and de novo Assembly of a Eukaryotic Genome
Monitoring the progress of DNA molecules through a membrane pore has been postulated as a method for sequencing DNA f...e use of these data, we developed a novel open-source hybrid error correction algori...2362 days ago
MetaSim A Sequencing Simulator for Genomics and Metagenomics.
Our software can be used to generate collections of synthetic reads that refl...ts. Based on a database of given genomes, the program allows the user to design a metagenome by specifyi...2357 days ago