Results for "Assembler"

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  • SPAdes

    SPAdes – St. Petersburg genome assembler – is intended for both standard isolates and single-cell MDA bacteria assemblies. This manual will help you to install and run SPAdes. SPAdes version 3.7.1 was released under GPLv2 on March 8, 2016 and can be downloaded from http://bioinf.spbau...

    Tags: Bioinformatics, NGS, Assembly, Assembler, SPAdes, Reads, Illumina

    583 days ago

  • CANU: Assembling Large Genomes with Single-Molecule Sequencing and Locality Sensitive Hashing.

    Canu is a fork of the Celera Assembler designed for high-noise single-molecule sequencing (such as the PacBio RSII or Oxford Nanopore MinION). The software is currently alpha level, feel free to use and report issues encountered. Canu is a hierachical assembly pipeline which runs in fo...

    Tags: Bioinformatics, FASTQ, NGS, Assembly, Genome, CANU, Assembler, Tool, Software

    559 days ago

  • Platanus

    Platanus is a novel de novo sequence assembler that can reconstruct genomic sequences of highly heterozygous diploids from massively parallel shotgun sequencing data. The latest version is 1.2.4. To cite Platanus, please use the following: Kajitani R, Toshimoto K, Noguchi H, Toyoda A, Ogura Y,...

    Tags: Bioinformatics, NGS, Assembly, de novo, Sequence, Assembler, Heterozygous

    559 days ago

  • KisSplice

    KisSplice is a software that enables to analyse RNA-seq data with or without a reference genome. It is an exact local transcriptome assembler that allows to identify SNPs, indels and alternative splicing events. It can deal with an arbitrary number of biological conditions, and will quantify each...

    Tags: Bioinformatics, Analysis, NGS, KISSPLICE, Transcriptome, Assembler, Genome

    464 days ago

  • NGS Tutorial

    These tutorials are written for hundreds of bioinformaticians trying to cope with large volume of next-generation sequencing (NGS) data. NGS technologies brought a dramatic shift in the world of sequencing. Merely five years back, genome sequencing of higher eukaryotes used to be very expensive e...

    Tags: Bioinformatics, Analysis, NGS, Tutorial, Assembler, Genome

    444 days ago

  • OPERA : Optimal Paired-End Read Assembler

    OPERA (Optimal Paired-End Read Assembler) is a sequence assembly program (http://en.wikipedia.org/wiki/Sequence_assembly). It uses information from paired-end/mate-pair/long reads to order and orient the intermediate contigs/scaffolds assembled in a genome assembly project, in a process known as ...

    Tags: Bioinformatics, Analysis, NGS, OPERA, Assembler, Genome

    440 days ago

  • FERMI

    Fermi is a de novo assembler with a particular focus on assembling Illumina short sequence reads from a mammal-sized genome. In addition to the role of a typical assembler, fermi also aims to preserve heterozygotes which are often collapsed by other assemblers. Its ultimate goal is...

    Tags: Bioinformatics, Analysis, NGS, FERMI, Assembler, Genome

    440 days ago

  • YASRA: Reference based assembler

    YASRA (Yet Another Short Read Assembler) performs comparative assembly of short reads using a reference genome, which can differ substantially from the genome being sequenced. Mapping reads to reference genomes makes use of LASTZ (Harris et al), a pairwise sequence aligner compatible with BLASTZ....

    Tags: Bioinformatics, YASRA, Assembler, Reference, Lastz

    267 days ago

  • CABOG: Celera Assembler with Best Overlap Graph

    CABOG (Celera Assembler with Best Overlap Graph) is scientific software for DNA research. CABOG has been a critical component of many genome sequencing projects. CABOG operates on small genomes such as bacterial as well as large genomes such as mammalian. CABOG is an extension of the Celera ...

    Tags: CABOG, Celera, Assembler, Overlap Graph, Bioinformatics, Assembly, Genome, Reads, NGS

    192 days ago

  • DISCO : multi threaded and multiprocess distributed memory overlap-layout-consensus (OLC) metagenome assembler

    DISCO is a multi threaded and multiprocess distributed memory overlap-layout-consensus (OLC) metagenome assembler. Disco was developed as a scalable assembler to assemble large metagenomes from billions of Illumina sequencing reads of complex microbial communities. Disco was parallelized for...

    Tags: multiprocess, distributed, memory, overlap, layout, consensus, OLC, metagenome, assembler

    136 days ago