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  "Title": "Tools for Flexible Survival Analysis Using Machine Learning",
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  "Repository": "https://cwolock.r-universe.dev",
  "Date/Publication": "2025-12-08 20:48:02 UTC",
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    "stackL",
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    "vim_brier",
    "vim_cindex",
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      "page": "aggregate_vim",
      "title": "Aggregate multiseed VIM results",
      "topics": [
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      ]
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      "page": "boost_c_index",
      "title": "Gradient boosting for C-index",
      "topics": [
        "boost_c_index"
      ]
    },
    {
      "page": "crossfit_oracle_preds",
      "title": "Generate cross-fitted oracle prediction function estimates",
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        "crossfit_oracle_preds"
      ]
    },
    {
      "page": "crossfit_surv_preds",
      "title": "Generate cross-fitted conditional survival predictions",
      "topics": [
        "crossfit_surv_preds"
      ]
    },
    {
      "page": "currstatCIR",
      "title": "Estimate a survival function under current status sampling",
      "topics": [
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      ]
    },
    {
      "page": "DR_pseudo_outcome_regression",
      "title": "Doubly-robust pseudo-outcome regression",
      "topics": [
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      ]
    },
    {
      "page": "generate_folds",
      "title": "Generate cross-fitting and sample-splitting folds",
      "topics": [
        "generate_folds"
      ]
    },
    {
      "page": "generate_nuisance_predictions_stackG",
      "title": "Estimate conditional survival function nuisance parameters using survival stacking",
      "topics": [
        "generate_nuisance_predictions_stackG"
      ]
    },
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      "page": "generate_oracle_predictions_boost",
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      "topics": [
        "generate_oracle_predictions_boost"
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    },
    {
      "page": "generate_oracle_predictions_DR",
      "title": "Estimate full oracle prediction function using DR pseudo-outcome regression",
      "topics": [
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      ]
    },
    {
      "page": "generate_oracle_predictions_SL",
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      "topics": [
        "generate_oracle_predictions_SL"
      ]
    },
    {
      "page": "multiseed_vim",
      "title": "Estimate variable importance with multiple seeds",
      "topics": [
        "multiseed_vim"
      ]
    },
    {
      "page": "predict.stackG",
      "title": "Obtain predicted conditional survival and cumulative hazard functions from a global survival stacking object",
      "topics": [
        "predict.stackG"
      ]
    },
    {
      "page": "predict.stackL",
      "title": "Obtain predicted conditional survival function from a local survival stacking object",
      "topics": [
        "predict.stackL"
      ]
    },
    {
      "page": "stackG",
      "title": "Estimate a conditional survival function using global survival stacking",
      "topics": [
        "stackG"
      ]
    },
    {
      "page": "stackL",
      "title": "Estimate a conditional survival function via local survival stacking",
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      ]
    },
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      "page": "vim",
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      "topics": [
        "vim"
      ]
    },
    {
      "page": "vim_accuracy",
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      "topics": [
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    },
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      "page": "vim_AUC",
      "title": "Estimate AUC VIM",
      "topics": [
        "vim_AUC"
      ]
    },
    {
      "page": "vim_brier",
      "title": "Estimate Brier score VIM",
      "topics": [
        "vim_brier"
      ]
    },
    {
      "page": "vim_cindex",
      "title": "Estimate concordance index VIM",
      "topics": [
        "vim_cindex"
      ]
    },
    {
      "page": "vim_rsquared",
      "title": "Estimate R-squared (proportion of explained variance) VIM based on event occurrence by a landmark time",
      "topics": [
        "vim_rsquared"
      ]
    },
    {
      "page": "vim_survival_time_mse",
      "title": "Estimate restricted predicted survival time MSE VIM",
      "topics": [
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      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/cwolock/actions/runs/27055576032"
    }
  ]
}