Results for "Metagenomics"

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  • SqueezeMeta: a fully automated metagenomics pipeline, from reads to bins

    SqueezeMeta is a full automatic pipeline for metagenomics/metatranscriptomics, covering all steps of the analysis. SqueezeMeta includes multi-metagenome support allowing the co-assembly of related metagenomes and the retrieval of individual genomes via binning procedures. Thus, SqueezeMeta featur...

    Tags: SqueezeMeta, fully, automated, metagenomics, pipeline, reads, bins

    1320 days ago

  • MetaEuk - sensitive, high-throughput gene discovery and annotation for large-scale eukaryotic metagenomics

    MetaEuk is a modular toolkit designed for large-scale gene discovery and annotation in eukaryotic metagenomic contigs. Metaeuk combines the fast and sensitive homology search capabilities of MMseqs2 with a dynamic programming procedure to recover optimal exons sets. It reduces redundanc...

    Tags: MetaEuk, sensitive, high-throughput, gene, discovery, annotation, large-scale, eukaryotic, metagenomics

    1171 days ago

  • CoverM: Read coverage calculator for metagenomics

    CoverM aims to be a configurable, easy to use and fast DNA read coverage and relative abundance calculator focused on metagenomics applications. CoverM calculates coverage of genomes/MAGs coverm genome (help) or individual contigs coverm contig (help). Calculating coverage by...

    Tags: Read, coverage, calculator, metagenomics, CoverM

    1064 days ago

  • The Breitbart lab

    Breitbart’s lab has created a new branch of biology called metagenomics in which one can sample and sequence genetic material collected from the environment. Breitbart lab is located in the College of Marine Science at the University of South Florida. She is chosen as top "10 Brilliant" scient...

    Tags: Metagenomics, bioinformatics, microbiology, sequencing

    3846 days ago

  • Workshop on population and metagenomics analysis @ NERC

    Workshop Overview A ten-day workshop taking place between 25 February - 6 March 2014 providing detailed hands-on training for population and meta-genomics analysis for researchers with little or no background in mathematics or computing. Venue: Dartington Hall, Totnes, Devon (nearest train ...

    Tags: NERC, Workshop, Population, Metagenomics, UK

    3771 days ago

  • Jitbiotech

    I am working on Phylogenetic and functional diversity of forest soil metagenome using Next Generation Sequencing.

    Tags: Microbiology, Metagenomics, Next Generation Sequencing

    3133 days ago

  • Bambus

    Bambus 2.0, the second generation Bambus scaffolder available as an open source package. While most other scaffolders are closely tied to a specific assembly program, Bambus accepts the output from most current assemblers and provides the user with great flexibility in choosing the scaffold...

    Tags: Scaffolders, Bioinformatics, Assembly, Metagenomics

    2782 days ago

  • Shinyheatmap

    Background: Transcriptomics, metabolomics, metagenomics, and other various next-generation sequencing (-omics) fields are known for their production of large datasets. Visualizing such big data has posed technical challenges in biology, both in terms of available computational resources as well a...

    Tags: Bioinformatics, Analysis, NGS, HeatMap, Genome, Shinyheatmap, R, Visualize, Map, Transcriptomics, Metabolomics, Metagenomics

    2716 days ago

  • MaxBin: software for binning assembled metagenomic sequences based on an Expectation-Maximization algorithm.

    MaxBin is software for binning assembled metagenomic sequences based on an Expectation-Maximization algorithm. Users can understand the underlying bins (genomes) of the microbes in their metagenomes by simply providing assembled metagenomic sequences and the reads coverage information or sequenci...

    Tags: Bioinformatics, Analysis, Assembly, Genome, Bin, Binning, Metagenomics

    2580 days ago

  • MetaSim A Sequencing Simulator for Genomics and Metagenomics.

    Our software can be used to generate collections of synthetic reads that reflect the diverse taxonomical composition of typical metagenome data sets. Based on a database of given genomes, the program allows the user to design a metagenome by specifying the number of genomes pr...

    Tags: MetaSim, Sequencing, Simulator, Genomics, Metagenomics

    2307 days ago