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  "Title": "Fit the Semiparameteric Accelerated Failure Time Model with\nElastic Net and Sparse Group Lasso Penalties",
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  "Authors@R": "c(person(\"Aaron J.\", \"Molstad\", email = \"amolstad@ufl.edu\", role = c(\"aut\", \"cre\"), comment = c(ORCID = \"0000-0003-0645-5105\")), person(\"Piotr M.\", \"Suder\", role = \"aut\"))",
  "Description": "The semiparametric accelerated failure time (AFT) model is\nan attractive alternative to the Cox proportional hazards\nmodel. This package provides a suite of functions for fitting\none popular rank-based estimator of the semiparametric AFT\nmodel, the regularized Gehan estimator. Specifically, we\nprovide functions for cross-validation, prediction, coefficient\nextraction, and visualizing both trace plots and\ncross-validation curves. For further details, please see Suder,\nP. M. and Molstad, A. J., (2022) Scalable algorithms for\nsemiparametric accelerated failure time models in high\ndimensions, Statistics in Medicine <doi:10.1002/sim.9264>.",
  "License": "GPL (>= 2)",
  "URL": "https://ajmolstad.github.io/research/",
  "BugReports": "https://github.com/ajmolstad/penAFT/issues",
  "NeedsCompilation": "yes",
  "Repository": "https://ajmolstad.r-universe.dev",
  "Date/Publication": "2024-12-03 14:51:22 UTC",
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      "title": "Fit the semiparameteric accelerated failure time model in high dimensions by minimizing a rank-based estimation criterion plus weighted elastic net or weighted sparse group-lasso penalty.",
      "topics": [
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      "title": "Generate a survival dataset from the log-logistic accelerated failure time model.",
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      "page": "penAFT",
      "title": "Fit the solution path for the penalized semiparametric accelerated failure time model with weighted elastic net or weighted sparse group lasso penalties.",
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    },
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      "page": "penAFT.coef",
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