Results for "metagenomic"

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  • Kraken: ultrafast metagenomic sequence classification using exact alignments

    Kraken is an ultrafast and highly accurate program for assigning taxonomic labels to metagenomic DNA sequences. Previous programs designed for this task have been relatively slow and computationally expensive, forcing researchers to use faster abundance estimation programs, which only classify sm...

    Tags: Bioinformatics, Kraken, Metagenomic, Sequence, Classification, Alignments, NGS

    2832 days ago

  • Kaiju

    Kaiju is a program for the taxonomic classification of metagenomic high-throughput sequencing reads. Each read is directly assigned to a taxon within the NCBI taxonomy by comparing it to a reference database containing microbial and viral protein sequences. By default, Kaiju uses either the avai...

    Tags: Bioinformatics, Kaiju, Metagenomic, Sequence, Classification, Alignments, NGS

    2832 days ago

  • BIGMAC : breaking inaccurate genomes and merging assembled contigs for long read metagenomic assembly

    This tool is for users to upgrade their metagenomics assemblies using long reads. This includes fixing mis-assemblies and scaffolding/gap-filling. If you encounter any issues, please contact me at kklam@eecs.berkeley.edu. My name is Ka-Kit Lam. https://github.com/kakitone/MetaFinisherSC ht...

    Tags: BIGMAC, Breaking, Inaccurate, Genomes, Merging, Assembled, Contigs, Long, Read, Metagenomic, Assembly

    2503 days ago

  • #NLP-MeTaxa: A Natural Language Processing Approach for #Metagenomic #Taxonomic #Binning Based on Deep Learning https://github.com/padriba/NLP_MeTaxa/

    Tags: NLP, Metagenomic, Taxonomic, Binning

    940 days ago

  • RITA: Rapid identification of high-confidence taxonomic assignments for metagenomic data

    RITA is a standalone software package and Web server for taxonomic assignment of metagenomic sequence reads. By combining homology predictions from BLAST or UBLAST with compositional classifications from a Naive Bayes classifier, RITA is able to achieve very high accuracy on short reads. Unlike o...

    Tags: Rapid, identification, high-confidence, taxonomic, assignments, metagenomic, data, RITA

    2314 days ago

  • ASAR: Advanced metagenomic Sequence Analysis in R

    An interactive data analysis tool for selection, aggregation and visualization of metagenomic data is presented. Functional analysis with a SEED hierarchy and pathway diagram based on KEGG orthology based upon MG-RAST annotation results is available. To read the manual, please click the link&nbs...

    Tags: ASAR, Advanced, metagenomic, Sequence, Analysis, R, NGS, Genomics, Genome

    2090 days ago

  • Metabuli 분리 improves metagenomic read classification

    Metabuli 분리 improves metagenomic read classification through metamers, DNA-AA k-mers, to be sensitive and specific, recovering 99% and 98% of DNA or AA classifiers.   Metabuli is metagenomic classifier that jointly analyze both DNA and amino acid (AA) sequences. DNA-based classifiers can m...

    Tags: Metabuli, 분리, metagenomic, read, classification, metamers, DNA-AA, k-mers, sensitive, and specific, DNA, AA, classifiers

    299 days ago