SKESA: strategic k-mer extension for scrupulous assemblies
...embler designed for assembling reads of microbial genomes sequenced using Illumina. Comparison with SPAdes and MegaHit shows that SKESA produces assemblies that have high sequence quali...2013 days ago
NovoGraph: building whole genome graphs from long-read-based de novo assemblies
NovoGraph: building whole genome graphs from long-read-based de novo assemblies An algorithmically novel appr...me graph representation of long-read-based de novo sequence assemblies. We then provide a proof of p...2012 days ago
SIMBA: a Genome Assembly Project Management System
SIMBA, SImple Manager for Bacterial Assemblies, is a Web interface for managing assembly projects of bacterial genomes. SIMBA was created to assist bioinformaticians to assemble bacteri...1998 days ago
Purge Haplotigs: Pipeline to help with curating heterozygous diploid genome assemblies
Some parts of a genome may have a very high degree of heterozygosity. This causes contigs for both haplotypes of that part of the genome to be assembled as separate prima...1980 days ago
Versatile genome assembly evaluation with QUAST-LG
QUAST-LG is an extension of QUAST intended for evaluating large-scale genome assemblies (up to mammalian-size). QUAST-LG is included in the QUAST package starting...1975 days ago
Hawkeye: an interactive visual analytics tool for genome assemblies
...refully examined. Hawkeye is our new visual analytics tool for genome assemblies, designed to aid in identifyi...bly metrics, and are guided by a ranking component towards likely mis-assemblies. Hawkeye is freely available...1965 days ago
1953 days ago
Roary: the Pan Genome Pipeline
Roary is a high speed stand alone pan genome pipeline, which takes annotated assemblies in GFF3 format (produced by Prokka (Seemann, 2014)) and calculates the pan genome. Using a standa...1944 days ago
NxRepair: error correction in de novo assemblies using Nextera Mate Pair Reads
NxRepair is a python module that automatically detects large structural errors in de novo assemblies using Nextera mate pair reads. The decector will break a contig at the site of an id...1942 days ago
Genome assembly forensics: finding the elusive mis-assembly
...validation. This work formalizes several mechanisms for detecting mis-assemblies, and describes their implemen...e application of our pipeline in both bacterial and eukaryotic genome assemblies, and highlight several assemb...1940 days ago