Files in sbalci/histopathology-template
Template of R Codes Used in Histopathology Research.

.Rbuildignore
.Rprofile
.binder/Dockerfile
.circleci/config.yml
.github/FUNDING.yml
.github/workflows/r-lib-actions-R-CMD-check.yml
.github/workflows/r-lib-actions-readme.yml
.gitpod.Dockerfile
.gitpod.yml
.travis.yml
DESCRIPTION
LICENSE
NAMESPACE
R/agreement.b.R R/cleanSurgPathNo.R R/cluster.b.R R/correlation.b.R R/decision.b.R R/decisioncalculator.b.R R/des_cat.R R/find_key.R R/force_git.R R/gc_desc_cat.R R/gc_desc_cont.R R/gc_fake_data.R R/gc_plot_cat.R R/gc_plot_cont.R R/gc_survival.R R/gc_table_cross.R R/loadLibrary.R R/multisurvival.b.R R/onAttach.R R/onLoad.R R/ozet.R R/report.b.R R/statsplot2.b.R R/tableone.b.R R/toplain.R R/tree.b.R R/writesummary.b.R README.Rmd README.md Report.Rmd
Report.html
Report.log
Report.md Report.pdf
Report.tex
Report_files/figure-docx/DataExplorer 4-1.png
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Report_files/figure-docx/DataExplorer 9-1.png
Report_files/figure-docx/Descriptive Statistics Age-1.png
Report_files/figure-docx/Descriptive Statistics Age-2.png
Report_files/figure-docx/Descriptive Statistics AntiX_intensity-1.png
Report_files/figure-docx/Descriptive Statistics AntiX_intensity-2.png
Report_files/figure-docx/Descriptive Statistics AntiY_intensity-1.png
Report_files/figure-docx/Descriptive Statistics AntiY_intensity-2.png
Report_files/figure-docx/Kaplan-Meier LVI-1.png
Report_files/figure-docx/Kaplan-Meier Plot Log-Rank Test 2-1.png
Report_files/figure-docx/Kaplan-Meier Plot Log-Rank Test TStage-1.png
Report_files/figure-docx/Kaplan-Meier Plot Log-Rank Test-1.png
Report_files/figure-docx/Median Survivals-1.png
Report_files/figure-docx/inspectdf 5-1.png
Report_files/figure-docx/km-1.png
Report_files/figure-docx/missing values visdat 2-1.png
Report_files/figure-docx/missing values visdat-1.png
Report_files/figure-docx/plot fake data-1.png
Report_files/figure-docx/unnamed-chunk-1-1.png
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Report_files/figure-docx/variable type plot explore-1.png
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Report_files/figure-docx/variable type plot visdat-1.png
Report_files/figure-docx/view ractable-1.png
Report_files/figure-docx/visdat-1.png
Report_files/figure-docx/xray 2-1.png
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Report_files/figure-html/DataExplorer 4-1.png
Report_files/figure-html/DataExplorer 5-1.png
Report_files/figure-html/DataExplorer 7-1.png
Report_files/figure-html/DataExplorer 7-2.png
Report_files/figure-html/DataExplorer 8-1.png
Report_files/figure-html/DataExplorer 8-2.png
Report_files/figure-html/DataExplorer 9-1.png
Report_files/figure-html/Descriptive Statistics Age-1.png
Report_files/figure-html/Descriptive Statistics Age-2.png
Report_files/figure-html/Descriptive Statistics AntiX_intensity-1.png
Report_files/figure-html/Descriptive Statistics AntiX_intensity-2.png
Report_files/figure-html/Descriptive Statistics AntiY_intensity-1.png
Report_files/figure-html/Descriptive Statistics AntiY_intensity-2.png
Report_files/figure-html/Kaplan-Meier LVI-1.png
Report_files/figure-html/Kaplan-Meier Plot Log-Rank Test 2-1.png
Report_files/figure-html/Kaplan-Meier Plot Log-Rank Test TStage-1.png
Report_files/figure-html/Kaplan-Meier Plot Log-Rank Test-1.png
Report_files/figure-html/Median Survivals-1.png
Report_files/figure-html/inspectdf 5-1.png
Report_files/figure-html/km-1.png
Report_files/figure-html/missing values visdat 2-1.png
Report_files/figure-html/missing values visdat-1.png
Report_files/figure-html/plot fake data-1.png
Report_files/figure-html/unnamed-chunk-1-1.png
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Report_files/figure-html/variable type plot explore-1.png
Report_files/figure-html/variable type plot inspectdf-1.png
Report_files/figure-html/variable type plot visdat-1.png
Report_files/figure-html/visdat-1.png
Report_files/figure-html/xray 2-1.png
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Report_files/figure-latex/DataExplorer 4-1.pdf Report_files/figure-latex/DataExplorer 5-1.pdf Report_files/figure-latex/DataExplorer 7-1.pdf Report_files/figure-latex/DataExplorer 7-2.pdf Report_files/figure-latex/DataExplorer 8-1.pdf Report_files/figure-latex/DataExplorer 8-2.pdf Report_files/figure-latex/DataExplorer 9-1.pdf Report_files/figure-latex/Descriptive Statistics Age-1.pdf Report_files/figure-latex/Descriptive Statistics Age-2.pdf Report_files/figure-latex/Descriptive Statistics AntiX_intensity-1.pdf Report_files/figure-latex/Descriptive Statistics AntiX_intensity-2.pdf Report_files/figure-latex/Descriptive Statistics AntiY_intensity-1.pdf Report_files/figure-latex/Descriptive Statistics AntiY_intensity-2.pdf Report_files/figure-latex/Kaplan-Meier LVI-1.pdf Report_files/figure-latex/Kaplan-Meier Plot Log-Rank Test 2-1.pdf Report_files/figure-latex/Kaplan-Meier Plot Log-Rank Test TStage-1.pdf Report_files/figure-latex/Kaplan-Meier Plot Log-Rank Test-1.pdf Report_files/figure-latex/Median Survivals-1.pdf Report_files/figure-latex/inspectdf 5-1.pdf Report_files/figure-latex/km-1.pdf Report_files/figure-latex/missing values visdat 2-1.pdf Report_files/figure-latex/missing values visdat-1.pdf Report_files/figure-latex/plot fake data-1.pdf Report_files/figure-latex/unnamed-chunk-1-1.pdf Report_files/figure-latex/unnamed-chunk-1-2.pdf Report_files/figure-latex/unnamed-chunk-2-1.pdf Report_files/figure-latex/variable type plot explore-1.pdf Report_files/figure-latex/variable type plot inspectdf-1.pdf Report_files/figure-latex/variable type plot visdat-1.pdf Report_files/figure-latex/view ractable-1.pdf Report_files/figure-latex/visdat-1.pdf Report_files/figure-latex/xray 2-1.pdf Report_files/figure-latex/xray 2-2.pdf Report_files/figure-latex/xray 2-3.pdf Report_files/figure-latex/xray 2-4.pdf Report_files/figure-latex/xray 2-5.pdf Report_files/figure-latex/xray 2-6.pdf
Report_files/fonts/open-sans-400.woff
Report_files/fonts/open-sans-700.woff
Report_files/images/body-bg.jpg
Report_files/images/body-bg.png
Report_files/images/header-bg.jpg
Report_files/images/highlight-bg.jpg
Report_files/style.css
_footer.html
aaatravis.yml.txt
appveyor.yml.txt
bib/packages.bib
bib/template.bib
childRmd/_01header.Rmd childRmd/_02fakeData.Rmd childRmd/_03importData.Rmd childRmd/_04briefSummary.Rmd childRmd/_05ethics.Rmd childRmd/_06variableTypes.Rmd childRmd/_07overView.Rmd childRmd/_08dataDictionary.Rmd childRmd/_09cleanRecode.Rmd childRmd/_10impute.Rmd childRmd/_11descriptives.Rmd childRmd/_12crossTables.Rmd childRmd/_13plots.Rmd childRmd/_14pairedTests.Rmd childRmd/_15hypothesisTests.Rmd childRmd/_16ROC.Rmd childRmd/_17decisionTree.Rmd childRmd/_18survival.Rmd childRmd/_19shinySurvival.Rmd childRmd/_20correlation.Rmd childRmd/_21models.Rmd childRmd/_22comments.Rmd childRmd/_23footer.Rmd childRmd/gc_desc_cat.Rmd childRmd/gc_desc_cont.Rmd childRmd/generatedCodeCrossTables.Rmd childRmd/generatedCodeSurvival.Rmd
css/style.css
data/histopathology-template2019-12-01.RData
data/histopathology-template2019-12-01.rds
data/histopathology-template2019-12-01.xlsx
data/histopathology-template2019-12-13.rds
data/histopathology-template2019-12-13.xlsx
data/histopathology-template2020-01-22.rds
data/histopathology-template2020-01-22.xlsx
data/histopathology-template2020-01-23.rds
data/histopathology-template2020-01-23.xlsx
data/histopathology-template2020-02-09.rds
data/histopathology-template2020-02-09.xlsx
data/histopathology-template2020-02-14.rds
data/histopathology-template2020-02-14.xlsx
data/histopathology-template2020-02-18.rds
data/histopathology-template2020-02-18.xlsx
data/histopathology-template2020-02-26.rds
data/histopathology-template2020-02-26.xlsx
data/mydata.xlsx
docs/404.html
docs/LICENSE-text.html
docs/Report.html
docs/authors.html
docs/docsearch.css
docs/docsearch.js
docs/index.html
docs/link.svg
docs/pkgdown.css
docs/pkgdown.js
docs/pkgdown.yml
docs/reference/index.html
figs/DataExplorer 4-1.pdf
figs/DataExplorer 4-1.png
figs/DataExplorer 5-1.pdf
figs/DataExplorer 5-1.png
figs/DataExplorer 7-1.pdf
figs/DataExplorer 7-1.png
figs/DataExplorer 7-2.pdf
figs/DataExplorer 7-2.png
figs/DataExplorer 8-1.pdf
figs/DataExplorer 8-1.png
figs/DataExplorer 8-2.pdf
figs/DataExplorer 8-2.png
figs/DataExplorer 9-1.pdf
figs/DataExplorer 9-1.png
figs/DataExplorer-1.png
figs/DataExplorer-2.png
figs/DataExplorer-3.png
figs/DataExplorer-4.png
figs/DataExplorer-5.png
figs/DataExplorer-6.png
figs/DataExplorer-7.png
figs/Descriptive Statistics Age-1.pdf
figs/Descriptive Statistics Age-1.png
figs/Descriptive Statistics Age-2.pdf
figs/Descriptive Statistics Age-2.png
figs/Descriptive Statistics Anti-X-intensity-1.png
figs/Descriptive Statistics Anti-X-intensity-2.png
figs/Descriptive Statistics Anti-Y-intensity-1.png
figs/Descriptive Statistics Anti-Y-intensity-2.png
figs/Descriptive Statistics AntiX_intensity-1.pdf
figs/Descriptive Statistics AntiX_intensity-1.png
figs/Descriptive Statistics AntiX_intensity-2.pdf
figs/Descriptive Statistics AntiX_intensity-2.png
figs/Descriptive Statistics AntiY_intensity-1.pdf
figs/Descriptive Statistics AntiY_intensity-1.png
figs/Descriptive Statistics AntiY_intensity-2.pdf
figs/Descriptive Statistics AntiY_intensity-2.png
figs/Kaplan-Meier LVI-1.pdf
figs/Kaplan-Meier LVI-1.png
figs/Kaplan-Meier Plot Log-Rank Test 2-1.pdf
figs/Kaplan-Meier Plot Log-Rank Test 2-1.png
figs/Kaplan-Meier Plot Log-Rank Test TStage-1.pdf
figs/Kaplan-Meier Plot Log-Rank Test TStage-1.png
figs/Kaplan-Meier Plot Log-Rank Test-1.pdf
figs/Kaplan-Meier Plot Log-Rank Test-1.png
figs/Median Survivals-1.pdf
figs/Median Survivals-1.png
figs/explore 3-1.png
figs/inspectdf 5-1.pdf
figs/inspectdf 5-1.png
figs/inspectdf column types 2-1.png
figs/km-1.pdf
figs/km-1.png
figs/missing values visdat 2-1.pdf
figs/missing values visdat 2-1.png
figs/missing values visdat-1.pdf
figs/missing values visdat-1.png
figs/plot fake data-1.pdf
figs/plot fake data-1.png
figs/unnamed-chunk-61-1.pdf
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figs/unnamed-chunk-61-2.pdf
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figs/unnamed-chunk-62-1.pdf
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figs/variable type plot explore-1.pdf
figs/variable type plot explore-1.png
figs/variable type plot inspectdf-1.pdf
figs/variable type plot inspectdf-1.png
figs/variable type plot visdat-1.pdf
figs/variable type plot visdat-1.png
figs/view ractable-1.pdf figs/visdat-1.pdf
figs/visdat-1.png
figs/visdat-10.png
figs/visdat-11.png
figs/visdat-2.png
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figs/visdat-7.png
figs/visdat-8.png
figs/visdat-9.png
figs/xray 2-1.pdf
figs/xray 2-1.png
figs/xray 2-2.pdf
figs/xray 2-2.png
figs/xray 2-3.pdf
figs/xray 2-3.png
figs/xray 2-4.pdf
figs/xray 2-4.png
figs/xray 2-5.pdf
figs/xray 2-5.png
figs/xray 2-6.pdf
figs/xray 2-6.png
figs/xray-1.png
figs/xray-2.png
figure/DataExplorer 4-1.png
figure/DataExplorer 5-1.png
figure/DataExplorer 7-1.png
figure/DataExplorer 7-2.png
figure/DataExplorer 8-1.png
figure/DataExplorer 8-2.png
figure/DataExplorer 9-1.png
figure/Descriptive Statistics Age-1.png
figure/Descriptive Statistics Age-2.png
figure/Descriptive Statistics Anti-X-intensity-1.png
figure/Descriptive Statistics Anti-X-intensity-2.png
figure/Descriptive Statistics Anti-Y-intensity-1.png
figure/Descriptive Statistics Anti-Y-intensity-2.png
figure/Descriptive Statistics AntiX_intensity-1.png
figure/Descriptive Statistics AntiX_intensity-2.png
figure/Descriptive Statistics AntiY_intensity-1.png
figure/Descriptive Statistics AntiY_intensity-2.png
figure/Kaplan-Meier LVI-1.png
figure/Kaplan-Meier Plot Log-Rank Test 2-1.png
figure/Kaplan-Meier Plot Log-Rank Test TStage-1.png
figure/Kaplan-Meier Plot Log-Rank Test-1.png
figure/Median Survivals-1.png
figure/generate fake data-1.png
figure/inspectdf 5-1.png
figure/km-1.png
figure/missing values visdat 2-1.png
figure/missing values visdat-1.png
figure/plot fake data-1.png
figure/unnamed-chunk-1-1.png
figure/unnamed-chunk-1-2.png
figure/unnamed-chunk-2-1.png
figure/variable type plot explore-1.png
figure/variable type plot inspectdf-1.png
figure/variable type plot visdat-1.png
figure/view ractable-1.png
figure/visdat-1.png
figure/xray 2-1.png
figure/xray 2-2.png
figure/xray 2-3.png
figure/xray 2-4.png
figure/xray 2-5.png
figure/xray 2-6.png
highlight_echo.tex
histopathology-template.Rproj
out/dataMaid_mydata.Rmd out/dataMaid_mydata.pdf
out/dataMaid_mydata.tex
out/mydata_summary.html
out/report.html.html
renv.lock
renv/activate.R shiny/app.R
text/MaterialsAndMethods.txt
tic.R
sbalci/histopathology-template documentation built on Feb. 26, 2020, 11:45 p.m.