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idmodelr-v0.3.0.zip

seabbs-idmodelr-44af4fd
- .Rbuildignore 343 Bytes
- .github
  - CODE_OF_CONDUCT.md 1.4 kB
  - CONTRIBUTING.md 2.2 kB
  - ISSUE_TEMPLATE
    - bug_report.md 834 Bytes
    - feature_request.md 595 Bytes
  - SUPPORT.md 1.9 kB
- .gitignore 102 Bytes
- .travis.yml 745 Bytes
- DESCRIPTION 2.5 kB
- Dockerfile 723 Bytes
- LICENSE 35.1 kB
- Makefile 949 Bytes
- NAMESPACE 2.5 kB
- NEWS.md 1.0 kB
- R
  - SEI.R 1.5 kB
  - SEIR.R 1.7 kB
  - SEIRS.R 1.8 kB
  - SEIS.R 1.6 kB
  - SHLIR.R 2.8 kB
  - SHLITR.R 7.6 kB
  - SI.R 1.5 kB
  - SIR.R 4.0 kB
  - SIRS.R 4.3 kB
  - SIS.R 1.6 kB
  - add_pointer_struct.R 581 Bytes
  - aggregate_model.R 3.5 kB
  - aggregate_model_internal.R 3.3 kB
  - combine_strat_model_output.R 2.1 kB
  - combine_to_age_model.R 2.5 kB
  - estimate_norm_dist_from_ci.R 1.2 kB
  - gather_strat_multi_variable.R 1.4 kB
  - gather_strat_variable.R 1.5 kB
  - generate_parameter_permutations.R 6.5 kB
  - idmodelr.R 33 Bytes
  - model_details.R 1.3 kB
  - model_df_to_vector.R 1.4 kB
  - parameter_details.R 646 Bytes
  - plot_model.R 4.6 kB
  - required_parameters.R 1.3 kB
  - scenario_analysis.R 5.6 kB
  - simulate_model.R 4.7 kB
  - solve.R 2.7 kB
  - summarise_model.R 2.0 kB
  - summarise_strat_var.R 1.1 kB
  - summarise_var_by_strat.R 1.9 kB
- README.Rmd 10.3 kB
- README.md 14.4 kB
- _pkgdown.yml 2.5 kB
- appveyor.yml 880 Bytes
- binder
  - Dockerfile 194 Bytes
- cran-comments.md 399 Bytes
- data
  - model_details.rda 738 Bytes
  - parameter_details.rda 878 Bytes
- data-raw
  - Makefile 267 Bytes
  - model_details.R 6.1 kB
  - model_details.rds 707 Bytes
  - parameter_details.R 2.2 kB
  - parameter_details.rds 804 Bytes
- idmodelr.Rproj 396 Bytes
- inst
  - CITATION 429 Bytes
  - paper
    - paper.bib 1.6 kB
    - paper.html 634.6 kB
    - paper.md 3.5 kB
  - scripts
    - generate_hex_sticker.R 1.8 kB
- man
  - SEIRS_demographics_ode.Rd 905 Bytes
  - SEIRS_ode.Rd 783 Bytes
  - SEIR_demographics_ode.Rd 838 Bytes
  - SEIR_ode.Rd 716 Bytes
  - SEIS_demographics_ode.Rd 823 Bytes
  - SEIS_ode.Rd 699 Bytes
  - SEI_demographics_ode.Rd 772 Bytes
  - SEI_ode.Rd 649 Bytes
  - SHLIR_demographics_ode.Rd 1.2 kB
  - SHLIR_ode.Rd 1.1 kB
  - SHLITR_demographics_ode.Rd 1.2 kB
  - SHLITR_ode.Rd 1.1 kB
  - SHLITR_risk_demographics_ode.Rd 1.4 kB
  - SHLITR_risk_ode.Rd 1.3 kB
  - SIRS_demographics_ode.Rd 817 Bytes
  - SIRS_ode.Rd 706 Bytes
  - SIRS_vaccination_demographics_ode.Rd 1.1 kB
  - SIRS_vaccination_ode.Rd 935 Bytes
  - SIR_demographics_ode.Rd 770 Bytes
  - SIR_ode.Rd 647 Bytes
  - SIR_vaccination_demographics_ode.Rd 1.0 kB
  - SIR_vaccination_ode.Rd 876 Bytes
  - SIS_demographics_ode.Rd 749 Bytes
  - SIS_ode.Rd 628 Bytes
  - SI_demographics_ode.Rd 704 Bytes
  - SI_ode.Rd 581 Bytes
  - add_pointer_struct.Rd 618 Bytes
  - aggregate_model.Rd 2.4 kB
  - aggregate_model_internal.Rd 2.7 kB
  - combine_strat_model_output.Rd 1.2 kB
  - combine_to_age_model.Rd 1.2 kB
  - estimate_norm_dist_from_ci.Rd 1.0 kB
  - figures
    - exploreidmodels.png 512.6 kB
    - logo.png 43.5 kB
    - unnamed-chunk-10-1.png 36.4 kB
    - unnamed-chunk-11-1.png 36.4 kB
    - unnamed-chunk-13-1.png 36.2 kB
    - unnamed-chunk-8-1.png 36.3 kB
    - unnamed-chunk-9-1.png 75.0 kB
  - gather_strat_multi_variable.Rd 1.4 kB
  - gather_strat_variable.Rd 1.2 kB
  - generate_parameter_permutations.Rd 3.2 kB
  - idmodelr-package.Rd 2.1 kB
  - model_details.Rd 1.4 kB
  - model_df_to_vector.Rd 1.0 kB
  - parameter_details.Rd 795 Bytes
  - plot_model.Rd 2.0 kB
  - required_parameters.Rd 1.1 kB
  - scenario_analysis.Rd 3.9 kB
  - simulate_model.Rd 3.5 kB
  - solve_ode.Rd 1.8 kB
  - summarise_model.Rd 980 Bytes
  - summarise_strat_var.Rd 883 Bytes
  - summarise_var_by_strat.Rd 1.5 kB
- pkgnet
  - Makefile 99 Bytes
  - generate_pkgnet_report.R 730 Bytes
  - idmodelr_report.html 2.7 MB
- tests
  - figs
    - deps.txt 67 Bytes
    - plot-model
      - base-plot.svg 15.2 kB
      - facet-plot.svg 15.2 kB
      - label-plot.svg 17.9 kB
      - list-label-default-plot.svg 17.9 kB
      - list-label-plot.svg 12.7 kB
  - test-files
    - SEIRS_demographics_ode
      - test-01.rds 0 Bytes
    - SEIRS_ode
      - test-01.rds 0 Bytes
    - SEIR_demographics_ode
      - test-01.rds 0 Bytes
    - SEIR_ode
      - test-01.rds 0 Bytes
    - SEIS_demographics_ode
      - test-01.rds 0 Bytes
    - SEIS_ode
      - test-01.rds 0 Bytes
    - SEI_demographics_ode
      - test-01.rds 0 Bytes
    - SEI_ode
      - test-01.rds 0 Bytes
    - SHLIR_demographics_ode
      - test-01.rds 0 Bytes
    - SHLIR_ode
      - test-01.rds 0 Bytes
    - SHLITR_demographics_ode
      - test-01.rds 0 Bytes
    - SHLITR_ode
      - test-01.rds 0 Bytes
    - SHLITR_risk_demographics_ode
      - test-01.rds 0 Bytes
    - SHLITR_risk_ode
      - test-01.rds 0 Bytes
    - SIRS_demographics_ode
      - test-01.rds 0 Bytes
    - SIRS_ode
      - test-01.rds 0 Bytes
    - SIRS_vaccination_demographics_ode
      - test-01.rds 0 Bytes
    - SIRS_vaccination_ode
      - test-01.rds 0 Bytes
    - SIR_demographics_ode
      - test-01.rds 0 Bytes
    - SIR_ode
      - test-01.rds 0 Bytes
    - SIR_vaccination_demographics_ode
      - test-01.rds 0 Bytes
    - SIR_vaccination_ode
      - test-01.rds 0 Bytes
    - SIS_demographics_ode
      - test-01.rds 0 Bytes
    - SIS_ode
      - test-01.rds 0 Bytes
    - SI_demographics_ode
      - test-01.rds 0 Bytes
    - SI_ode
      - test-01.rds 0 Bytes
    - aggregate_model
      - test-01.rds 0 Bytes
      - test-02.rds 0 Bytes
    - aggregate_model_internal
      - test-01.rds 0 Bytes
      - test-02.rds 0 Bytes
      - test-03.rds 0 Bytes
      - test-04.rds 0 Bytes
    - simulate_model
      - test-01.rds 0 Bytes
      - test-02.rds 0 Bytes
    - solve_ode
      - test-01.rds 0 Bytes
    - summarise_model
      - test-01.rds 0 Bytes
  - testthat
    - test-SEIRS_demographics_ode.R 559 Bytes
    - test-SEIRS_ode.R 471 Bytes
    - test-SEIR_demographics_ode.R 517 Bytes
    - test-SEIR_ode.R 445 Bytes
    - test-SEIS_demographics_ode.R 484 Bytes
    - test-SEIS_ode.R 412 Bytes
    - test-SEI_demographics_ode.R 458 Bytes
    - test-SEI_ode.R 387 Bytes
    - test-SHLIR_demographics_ode.R 839 Bytes
    - test-SHLIR_ode.R 740 Bytes
    - test-SHLITR_demographics_ode.R 845 Bytes
    - test-SHLITR_ode.R 753 Bytes
    - test-SHLITR_risk_demographics_ode.R 1.0 kB
    - test-SHLITR_risk_ode.R 959 Bytes
    - test-SIRS_demographics_ode.R 491 Bytes
    - test-SIRS_ode.R 420 Bytes
    - test-SIRS_vaccination_demographics_ode.R 698 Bytes
    - test-SIRS_vaccination_ode.R 614 Bytes
    - test-SIR_demographics_ode.R 465 Bytes
    - test-SIR_ode.R 394 Bytes
    - test-SIR_vaccination_demographics_ode.R 673 Bytes
    - test-SIR_vaccination_ode.R 588 Bytes
    - test-SIS_demographics_ode.R 425 Bytes
    - test-SIS_ode.R 353 Bytes
    - test-SI_demographics_ode.R 399 Bytes
    - test-SI_ode.R 327 Bytes
    - test-add_pointer_struct.R 348 Bytes
    - test-aggregate_model.R 922 Bytes
    - test-aggregate_model_internal.R 1.8 kB
    - test-combine_strat_model_output.R 1.4 kB
    - test-combine_to_age_model.R 1.3 kB
    - test-estimate_norm_dist_from_ci.R 523 Bytes
    - test-gather_strat_multi_variable.R 1.3 kB
    - test-gather_strat_variable.R 1.2 kB
    - test-generate_parameter_permutations.R 1.5 kB
    - test-model_df_to_vector.R 664 Bytes
    - test-plot_model.R 2.0 kB
    - test-required_parameters.R 530 Bytes
    - test-scenario_analysis.R 2.5 kB
    - test-simulate_model.R 1.7 kB
    - test-solve_ode.R 503 Bytes
    - test-sumarise_var_by_strat.R 1.2 kB
    - test-summarise-model.R 547 Bytes
    - test-summarise_strat_var.R 513 Bytes
  - testthat.R 88 Bytes
- vignettes
  - .gitignore 11 Bytes
  - model_details.Rmd 544 Bytes
  - parameter_details.Rmd 563 Bytes
  - resources.Rmd 7.1 kB