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  1. hisat2

    Graph-based alignment (Hierarchical Graph FM index)

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  2. tophat

    Spliced read mapper for RNA-Seq

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  3. centrifuge

    Classifier for metagenomic sequences

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  4. hisat

    Fast spliced aligner with low memory requirements

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  5. tophat2

    tophat2 is exactly the same source as tophat (just naming convention), so please use tophat (

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  6. hisatgenotype_db

    HISAT-genotype's database for human genes


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