Results for "Alignments"

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  • Alignment of closely related whole genomes/scaffolds

    With the relative ease and low cost of current generation sequencing technologies has led to a dramatic increase in the number of sequenced genomes for species across the tree of life. This increasing volume of data requires tools that can quickly compare multiple whole-genome sequences, millions...

    Tags: Whole genome, NGS, Genome, Scaffolds, pan-genome, Evolution, Alignments, Compare

    604 days ago

  • 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

    454 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

    454 days ago

  • BAMStats: an interactive desktop GUI tool for summarising Next Generation Sequencing alignments

    Two BAMstats jar executables providing command line (CLI) and graphic user (GUI) interfaces. For example, running the GUI with 6 GB of memory allocated: java -Xmx6g -jar BAMStats-GUI-1.25.jar Running the equivalent command line tool: java -Xmx4g -jar BAMStats-1.25.jar -i <bam file>Betwee...

    Tags: BAMStats, interactive, desktop, GUI, tool, summarising, Next, Generation, Sequencing, alignments

    39 days ago

  • ALIGNSEC: viewing protein secondary structure predictions within large multiple sequence alignments.

    ALIGNSEC is a module within ANTHEPROT designed for the interactive display, edition and printing of large scale multiple alignments integrating secondary structure predictions.

    Tags: ALIGNSEC, viewing, protein, secondary, structure, predictions, multiple, sequence, alignments

    31 days ago