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  "Title": "BANDITS: Bayesian ANalysis of DIfferenTial Splicing",
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  "Author": "Simone Tiberi [aut, cre].",
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  "Description": "BANDITS is a Bayesian hierarchical model for detecting\ndifferential splicing of genes and transcripts, via\ndifferential transcript usage (DTU), between two or more\nconditions. The method uses a Bayesian hierarchical framework,\nwhich allows for sample specific proportions in a\nDirichlet-Multinomial model, and samples the allocation of\nfragments to the transcripts. Parameters are inferred via\nMarkov chain Monte Carlo (MCMC) techniques and a DTU test is\nperformed via a multivariate Wald test on the posterior\ndensities for the average relative abundance of transcripts.",
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      "title": "BANDITS: Bayesian ANalysis of DIfferenTial Splicing",
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        "BANDITS-package",
        "BANDITS"
      ]
    },
    {
      "page": "BANDITS_data-class",
      "title": "BANDITS_data class",
      "topics": [
        "BANDITS_data",
        "BANDITS_data-class",
        "show,BANDITS_data-method"
      ]
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      "page": "BANDITS_test-class",
      "title": "BANDITS_test class",
      "topics": [
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        "BANDITS_test-class",
        "convergence",
        "convergence,BANDITS_test-method",
        "gene",
        "gene,BANDITS_test-method",
        "plot_proportions",
        "plot_proportions,BANDITS_test-method",
        "show,BANDITS_test-method",
        "top_genes",
        "top_genes,BANDITS_test-method",
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        "top_transcripts,BANDITS_test-method",
        "transcript",
        "transcript,BANDITS_test-method"
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      "topics": [
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      "topics": [
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      "topics": [
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      "title": "BANDITS: Bayesian ANalysis of DIfferenTial Splicing",
      "author": "Simone Tiberi",
      "engine": "knitr::rmarkdown",
      "headings": [
        "Introduction",
        "Bioconductor installation",
        "Devel installation from github",
        "Aligning reads",
        "Gene-transcript matching",
        "DTU pipeline",
        "Preliminary information",
        "Optional (recommended): transcript pre-filtering",
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        "salmon input",
        "kallisto input",
        "Optional (recommended): infer an informative prior for the precision parameter",
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        "Inference with 3 or more groups",
        "Inference with 1 group only",
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        "References"
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