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m-clarkm-clark
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add actions, remove travis/appveyor
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‎.github/.gitignore

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*.html

‎.github/workflows/R-CMD-check.yaml

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on:
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push:
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branches:
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- master
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pull_request:
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branches:
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- master
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name: R-CMD-check
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jobs:
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R-CMD-check:
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runs-on: ${{ matrix.config.os }}
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name: ${{ matrix.config.os }} (${{ matrix.config.r }})
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strategy:
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fail-fast: false
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matrix:
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config:
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- {os: macOS-latest, r: 'devel'}
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- {os: macOS-latest, r: 'release'}
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- {os: macOS-latest, r: '3.6'}
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- {os: windows-latest, r: 'release'}
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- {os: windows-latest, r: '3.6'}
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- {os: ubuntu-16.04, r: 'release', rspm: "https://packagemanager.rstudio.com/cran/__linux__/xenial/latest"}
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- {os: ubuntu-16.04, r: '3.6', rspm: "https://packagemanager.rstudio.com/cran/__linux__/xenial/latest"}
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env:
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R_REMOTES_NO_ERRORS_FROM_WARNINGS: true
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RSPM: ${{ matrix.config.rspm }}
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GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }}
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steps:
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- uses: actions/checkout@v2
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- uses: r-lib/actions/setup-r@master
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with:
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r-version: ${{ matrix.config.r }}
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- uses: r-lib/actions/setup-pandoc@master
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- name: Query dependencies
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run: |
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install.packages('remotes')
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saveRDS(remotes::dev_package_deps(dependencies = TRUE), ".github/depends.Rds", version = 2)
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writeLines(sprintf("R-%i.%i", getRversion()$major, getRversion()$minor), ".github/R-version")
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shell: Rscript {0}
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- name: Cache R packages
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if: runner.os != 'Windows'
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uses: actions/cache@v1
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with:
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path: ${{ env.R_LIBS_USER }}
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key: ${{ runner.os }}-${{ hashFiles('.github/R-version') }}-1-${{ hashFiles('.github/depends.Rds') }}
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restore-keys: ${{ runner.os }}-${{ hashFiles('.github/R-version') }}-1-
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- name: Install system dependencies
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if: runner.os == 'Linux'
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env:
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RHUB_PLATFORM: linux-x86_64-ubuntu-gcc
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run: |
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Rscript -e "remotes::install_github('r-hub/sysreqs')"
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sysreqs=$(Rscript -e "cat(sysreqs::sysreq_commands('DESCRIPTION'))")
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sudo -s eval "$sysreqs"
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- name: Install dependencies
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run: |
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remotes::install_deps(dependencies = TRUE)
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remotes::install_cran("rcmdcheck")
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shell: Rscript {0}
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- name: Session info
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run: |
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options(width = 100)
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pkgs <- installed.packages()[, "Package"]
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sessioninfo::session_info(pkgs, include_base = TRUE)
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shell: Rscript {0}
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- name: Check
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env:
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_R_CHECK_CRAN_INCOMING_: false
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run: rcmdcheck::rcmdcheck(args = c("--no-manual", "--as-cran"), error_on = "warning", check_dir = "check")
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shell: Rscript {0}
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- name: Show testthat output
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if: always()
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run: find check -name 'testthat.Rout*' -exec cat '{}' \; || true
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shell: bash
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- name: Upload check results
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if: failure()
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uses: actions/upload-artifact@master
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with:
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name: ${{ runner.os }}-r${{ matrix.config.r }}-results
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path: check
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- name: Test coverage
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run: covr::codecov()
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shell: Rscript {0}

‎.travis.yml

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‎README.Rmd

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```
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<!-- badges: start -->
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[![Travis build status](https://travis-ci.org/m-clark/confusionMatrix.svg?branch=master)](https://travis-ci.org/m-clark/confusionMatrix)
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[![AppVeyor Build Status](https://ci.appveyor.com/api/projects/status/github/m-clark/confusionMatrix?branch=master&svg=true)](https://ci.appveyor.com/project/m-clark/confusionMatrix)
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[![R build status](https://github.com/m-clark/confusionMatrix/workflows/R-CMD-check/badge.svg)](https://github.com/m-clark/confusionMatrix/actions)
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[![Codecov test coverage](https://codecov.io/gh/m-clark/confusionMatrix/branch/master/graph/badge.svg)](https://codecov.io/gh/m-clark/confusionMatrix?branch=master)
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[![Lifecycle: maturing](https://img.shields.io/badge/lifecycle-experimental-blue.svg)](https://www.tidyverse.org/lifecycle/#experimental)
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<!-- <a href="https://github.com/m-clark/confusionMatrix" alt="Miscellaneous Shenanigans"> -->
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<!-- <img src="https://img.shields.io/badge/Status-Meh-ff5500.svg?colorA=00aaff&longCache=true&style=for-the-badge" width=20.5%/></a> -->
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<!-- badges: end -->
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<!-- badges: end -->
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# confusionMatrix

‎README.md

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<!-- badges: start -->
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[![Travis build
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status](https://travis-ci.org/m-clark/confusionMatrix.svg?branch=master)](https://travis-ci.org/m-clark/confusionMatrix)
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[![AppVeyor Build
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Status](https://ci.appveyor.com/api/projects/status/github/m-clark/confusionMatrix?branch=master&svg=true)](https://ci.appveyor.com/project/m-clark/confusionMatrix)
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[![R build
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status](https://github.com/m-clark/confusionMatrix/workflows/R-CMD-check/badge.svg)](https://github.com/m-clark/confusionMatrix/actions)
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[![Codecov test
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coverage](https://codecov.io/gh/m-clark/confusionMatrix/branch/master/graph/badge.svg)](https://codecov.io/gh/m-clark/confusionMatrix?branch=master)
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[![Lifecycle:
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maturing](https://img.shields.io/badge/lifecycle-experimental-blue.svg)](https://www.tidyverse.org/lifecycle/#experimental)
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<!-- <a href="https://github.com/m-clark/confusionMatrix" alt="Miscellaneous Shenanigans"> -->
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<!-- <img src="https://img.shields.io/badge/Status-Meh-ff5500.svg?colorA=00aaff&longCache=true&style=for-the-badge" width=20.5%/></a> -->
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<!-- badges: end -->
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$Accuracy
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# A tibble: 1 x 6
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Accuracy `Accuracy LL` `Accuracy UL` `Accuracy Guess~ `Accuracy P-val~
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Accuracy `Accuracy LL` `Accuracy UL` `Accuracy Guess… `Accuracy P-val…
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<dbl> <dbl> <dbl> <dbl> <dbl>
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1 0.524 0.460 0.587 0.64 1.000
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# ... with 1 more variable: `Frequency Table` <list>
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1 0.596 0.532 0.657 0.692 0.999
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# … with 1 more variable: `Frequency Table` <list>
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$Other
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# A tibble: 1 x 19
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Positive N `N Positive` `N Negative` `Sensitivity/Re~
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<chr> <int> <int> <int> <dbl>
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1 a 250 90 160 0.344
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# ... with 14 more variables: `Specificity/TNR` <dbl>,
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# `PPV/Precision` <dbl>, NPV <dbl>, `F1/Dice` <dbl>, Prevalence <dbl>,
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# `Detection Rate` <dbl>, `Detection Prevalence` <dbl>, `Balanced
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# Accuracy` <dbl>, FDR <dbl>, FOR <dbl>, `FPR/Fallout` <dbl>, FNR <dbl>,
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# `D Prime` <dbl>, AUC <dbl>
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Positive N `N Positive` `N Negative` `Sensitivity/Re… `Specificity/TN…
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<chr> <int> <int> <int> <dbl> <dbl>
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1 a 250 77 173 0.338 0.711
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# … with 13 more variables: `PPV/Precision` <dbl>, NPV <dbl>, `F1/Dice` <dbl>,
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# Prevalence <dbl>, `Detection Rate` <dbl>, `Detection Prevalence` <dbl>,
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# `Balanced Accuracy` <dbl>, FDR <dbl>, FOR <dbl>, `FPR/Fallout` <dbl>,
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# FNR <dbl>, `D Prime` <dbl>, AUC <dbl>
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$`Association and Agreement`
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# A tibble: 1 x 6
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Kappa `Adjusted Rand` Yule Phi Peirce Jaccard
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<dbl> <dbl> <dbl> <dbl> <dbl> <dbl>
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1 -0.0305 -0.00699 -0.0663 -0.0305 0.364 0.457
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Kappa `Adjusted Rand` Yule Phi Peirce Jaccard
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<dbl> <dbl> <dbl> <dbl> <dbl> <dbl>
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1 0.0488 0.0116 0.113 0.0488 0.0486 0.549
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``` r
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result$Accuracy$`Frequency Table`
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[[1]]
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Target
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Predicted a b
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a 31 60
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b 59 100
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a 26 50
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b 51 123
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``` r
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result = confusion_matrix(
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result
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```
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```
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$Accuracy
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# A tibble: 5 x 2
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Statistic Value
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<chr> <dbl>
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1 Accuracy 0.524
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2 Accuracy LL 0.460
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3 Accuracy UL 0.587
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4 Accuracy Guessing 0.64
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5 Accuracy P-value 1.000
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$Other
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# A tibble: 18 x 3
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Positive Statistic Value
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<chr> <chr> <dbl>
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1 a N 250
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2 a N Positive 90
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3 a N Negative 160
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4 a Sensitivity/Recall/TPR 0.344
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5 a Specificity/TNR 0.625
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6 a PPV/Precision 0.341
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7 a NPV 0.629
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8 a F1/Dice 0.343
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9 a Prevalence 0.36
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10 a Detection Rate 0.124
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11 a Detection Prevalence 0.364
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12 a Balanced Accuracy 0.485
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13 a FDR 0.659
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14 a FOR 0.371
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15 a FPR/Fallout 0.375
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16 a FNR 0.656
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17 a D Prime -0.0817
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18 a AUC 0.523
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$`Association and Agreement`
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# A tibble: 6 x 2
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Statistic Value
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<chr> <dbl>
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1 Kappa -0.0305
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2 Adjusted Rand -0.00699
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3 Yule -0.0663
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4 Phi -0.0305
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5 Peirce 0.364
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6 Jaccard 0.457
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```
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$Accuracy
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# A tibble: 5 x 2
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Statistic Value
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<chr> <dbl>
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1 Accuracy 0.596
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2 Accuracy LL 0.532
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3 Accuracy UL 0.657
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4 Accuracy Guessing 0.692
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5 Accuracy P-value 0.999
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$Other
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# A tibble: 18 x 3
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Positive Statistic Value
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<chr> <chr> <dbl>
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1 a N 250
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2 a N Positive 77
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3 a N Negative 173
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4 a Sensitivity/Recall/TPR 0.338
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5 a Specificity/TNR 0.711
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6 a PPV/Precision 0.342
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7 a NPV 0.707
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8 a F1/Dice 0.340
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9 a Prevalence 0.308
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10 a Detection Rate 0.104
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11 a Detection Prevalence 0.304
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12 a Balanced Accuracy 0.524
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13 a FDR 0.658
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14 a FOR 0.293
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15 a FPR/Fallout 0.289
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16 a FNR 0.662
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17 a D Prime 0.137
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18 a AUC 0.538
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$`Association and Agreement`
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# A tibble: 6 x 2
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Statistic Value
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<chr> <dbl>
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1 Kappa 0.0488
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2 Adjusted Rand 0.0116
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3 Yule 0.113
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4 Phi 0.0488
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5 Peirce 0.0486
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6 Jaccard 0.549
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### Installation
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‎appveyor.yml

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