MOSAIK: A Hash-Based Algorithm for Accurate Next-Generation Sequencing Short-Read Mapping
...short insertions and deletions. To support the growing interest in larger structural variant (SV) discovery, MOSAIK provides explicit support for handling known-sequence SVs, e.g. mobi...2918 days ago
OPERA : Optimal Paired-End Read Assembler
...errors, improve efficiency etc.) and incorporated features that are important for scaffolding large genomes (multi-library support, better repeat-handling etc.), in addition to other s...2807 days ago
BLAST Ring Image Generator (BRIG)
...is a free cross-platform (Windows/Mac/Unix) application that can display circular comparisons between a large number of genomes, with a focus on handling genome assembly data. The app...2786 days ago
Many-Core Engine (MCE) for Perl example
...es the Core API for Many-Core Engine. The various MCE options are described here. MCE::Signal Temporary directory creation, cleanup, and signal handling. MCE::Util Utility function...2663 days ago
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GraphMap - A highly sensitive and accurate mapper for long, error-prone reads
...and precision across different error profiles, rates and sequencing technologies even with default parameters. Circular genome handling to resolve coverage drops nea...2536 days ago
QuorUM: An Error Corrector for Illumina Reads
...advertised 1%) error rate, 100 × coverage Illumina data on average has an error in some read at every base in the genome. These errors make handling the data more complicated bec...2382 days ago
RGFA: powerful and convenient handling of assembly graphs
RGFA, an implementation of the proposed GFA specification in Ruby. It allows the user to conveniently parse, edit and write GFA files. Complex operations such as the sep...1579 days ago
LAMSA: fast split read alignment with long approximate matches
LAMSA (Long Approximate Matches-based Split Aligner) is a novel split alignment approach with faster speed and good ability of handling SV events. It is well-suited to align long reads...2194 days ago
GRAbB: Selective Assembly of Genomic Regions, a New Niche for Genomic Research
GRAbB is shown to be more efficient than MITObim in terms of speed, memory and disk usage. The other functionalities (handling multiple targets simultaneously and extracting homologous...1937 days ago