Results for "metagenome"


  • VirMet

    Watch out: only a few files are counted in coverage statistics. Full documentation on Read the Docs. A set of tools for viral metagenomics. virmet is called with a command subcommand syntax: virmet fetch --viral n, for example, downloads the bacterial database. Other available subcom...

    Tags: Bioinformatics, Analysis, NGS, VirMet, Genome, MetaGenome

    501 days ago


    Metagenomics sequencing projects collect samples of DNA from uncharacterized environments that may contain hundreds or even thousands of species. One of the main challenges in analyzing a metagenome is phylogenetic classification of raw sequence reads into groups representing the same or similar ...

    Tags: Bioinformatics, Analysis, NGS, PHYMMBL, Genome, MetaGenome, Classification, Reads

    501 days ago

  • GroopM: Metagenomic binning toolset

    GroopM is a metagenomic binning toolset. It leverages spatio-temoraldynamics (differential coverage) to accurately (and almost automatically)extract population genomes from multi-sample metagenomic datasets. GroopM is largely parameter-free. Use: groopm -h for more info. For installation and us...

    Tags: Bioinformatics, Analysis, Assembly, Genome, GroopM, Metagenome, Binning

    353 days ago

  • Multigenome assembly

    This project contains scripts and tutorials on how to assemble individual microbial genomes from metagenomes, as described in: Genome sequences of rare, uncultured bacteria obtained by differential coverage binning of multiple metagenomes Mads Albertsen, Philip Hugenholtz, Adam Skarshewski, Gen...

    Tags: Bioinformatics, Analysis, Assembly, Genome, Multigenome, Metagenome, Filter

    346 days ago

  • Metagenomics assembly workshop !!

    Welcome to the one-day metagenomics assembly workshop. This tutorial will guide you through the typical steps of metagenome assembly and binning. The Tutorial Data Set FastQC Quality Control Assembly Velvet Assembly MEGAHIT Assembly IDBA-UD Assembly Ray Assembly Gene Predi...

    Tags: Bioinformatics, Metagenome, Workshop, Tutorial

    311 days ago

  • Omega2: metagenome assembly pipeline

    Omega found overlaps between reads using a prefix/suffix hash table. The overlap graph of reads was simplified by removing transitive edges and trimming short branches. Unitigs were generated based on minimum cost flow analysis of the overlap graph and then merged to contigs and scaffolds using m...

    Tags: Omega2, metagenome, assembly, pipeline

    228 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

    228 days ago

  • GOLD:Genomes Online Database

    GOLD:Genomes Online Database, is a World Wide Web resource for comprehensive access to information regarding genome and metagenome sequencing projects, and their associated metadata, around the world.

    Tags: GOLD, Genomes, Online, Database, comprehensive, access, information, genome, metagenome, sequencing, projects, metadata

    212 days ago

  • Mash: fast genome and metagenome distance estimation using MinHash

    Mash is normally distributed as a dependency-free binary for Linux or OSX (see This source distribution is intended for other operating systems or for development. Mash requires c++11 to build, which is available in and GCC >= 4.8 and OSX >= 10....

    Tags: Mash, fast, genome, metagenome, distance, estimation, MinHash

    72 days ago