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  "Title": "Model Gene Expression Dynamics with Spline-Based NB GLMs, GEEs,\n& GLMMs",
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  "Description": "Our scLANE model uses truncated power basis spline models\nto build flexible, interpretable models of single cell gene\nexpression over pseudotime or latent time. The modeling\narchitectures currently supported are Negative-binomial GLMs,\nGEEs, & GLMMs. Downstream analysis functionalities include\nmodel comparison, dynamic gene clustering, smoothed counts\ngeneration, gene set enrichment testing, & visualization.",
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  "Repository": "https://bioc.r-universe.dev",
  "Date/Publication": "2026-04-28 13:05:45 UTC",
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  "Author": "Jack R. Leary [aut, cre] (ORCID:\n<https://orcid.org/0009-0004-8821-3269>),\nRhonda Bacher [ctb, fnd] (ORCID:\n<https://orcid.org/0000-0001-5787-476X>)",
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    "testDynamic",
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      "title": "An object of class 'scLANE'.",
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      "page": "bootstrapRandomEffects",
      "title": "Generate bootstrapped confidence intervals for random effects.",
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      "page": "chooseCandidateGenes",
      "title": "Choose candidate genes for trajectory DE analysis.",
      "topics": [
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      "page": "clusterGenes",
      "title": "Cluster the fitted values from a set of 'scLANE' models.",
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      "page": "createCellOffset",
      "title": "Create an offset vector before modeling.",
      "topics": [
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      "title": "A helper function to create a dataframe of breakpoints and associated _p_-values from a 'marge' model.",
      "topics": [
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      "page": "embedGenes",
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      "page": "enrichDynamicGenes",
      "title": "Perform GSEA on dynamic genes identified by 'scLANE'.",
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      "title": "Identify driver genes for a given gene program.",
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      "title": "Add per-cell module scores for gene programs.",
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      "title": "Fit 'MARGE' models of single cell counts.",
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      "title": "Fit a negative-binomial GAM.",
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      "title": "Generate tidy results from 'clusterGenes' to use in plotting.",
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      "title": "Plot gene dynamics with estimated coefficients.",
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      "title": "Plot results of 'marge' and other models using 'ggplot2'.",
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      "title": "Print method for summary.scLANE objects.",
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      "title": "Generate a summary of the MARGE model.",
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      "title": "Generate a summary of the null model.",
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      "title": "An object of class 'scLANE'.",
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      "title": "Given estimates from the null model fit and the design matrix for alternative model, find the score statistic (this is used for GEEs only).",
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