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NEWS

• Update: simplified file input functions.
• Update: Modified the Fine-Gray module to use the id argument.

• Fix: default cut-off value in rocModule and rocModule2 when there is only one independent variable.
• Fix: Kaplan-Meier plots now work when “Time by” is below 1.

• Added Brier and AUC calculation to timeroc functionality; fixed bugs.

• New addin: templateGenerator, make your shiny in ease.

• Independant variable can be selected continuously when there is vec.event and vec.time

• Modified the jsmodule theme to enhance visual consistency and readability.

• Added a slider to adjust pcut.univariate, allowing multivariate analysis to be performed only with significant variables.
• Select first variable when vec.event and vec.time is NULL in coxph.R.

• Added an option to adjust the line thickness of the Kaplan-Meier plot.

• Added an option to the Kaplan-Meier, Cox, and ForestCox modules that allows the outcome (event) and time variables to be linked when the user specifies vec.event and vec.time. When this option is enabled, selecting an event variable automatically updates the corresponding time variable, and vice versa.

• Add options to customize x axis ticks in forest plot

• Add function to allow adjusting cutoff for a single independent variable and observing model’s metrics in rocModule, rocModule2.
• Add option to turn pairwise p value option on in case level of stratified group >= 3, in tb1moduleUI.
• Add subgroup analysis for propensity score matching/repeated/survey.

• Add competing risk analysis in subgroup, Kaplan-meier, regression tab.

• Change Boxplot fill type

• sav file load in FilePSInput.R, FileRepeatedInput.R, FileSurveyInput.R

• Add label option on lineplot

• Fix 2 group factor not working problem in forestcoxServer

• Fix var_label displaying incorrectly when loading .sav file

• Download table as word document (Thanks for Jinhwan Kim)

• Apply SPSS label info (Thanks for Jinhwan Kim)

• dropdown button & p value options: barplot, boxplot and lineplot

• Add P value option to barplot, boxplot and lineplot
• Add dropdown button for graphical option to barplot, boxplot and lineplot

• Add Subgroupanalysis to jsBasicGadget
• Add figure in subgroup analysis with forestplot
• Add family ‘poisson’ in forestglm
• Add “line size” “point size” to lineplot

• Subgroup analysis with forestplot (Thanks for Yoonkyoung Jeon)

• forestcox (forestcoxUI, forestcoxServer)

• forestglm (forestglmUI, forestglmServer)

• Add “reverse y-axis” option to lineplot

• rocModule: Add accucary/ppv/npv with threshold

• Change default non-normal 2 group comparison test to wilcox.test

• update deprecated icon (Plot panel)

feature applies in jsBasicExtAddin (shiny app)

• Add description with callout
  • Data , Table 1 panel
• modified some UI (with style.css)
  • header color changed
  • add zarathu & github page in header
  • table 1’s significant data changed
  • Data’s table column has color (when vairable is category)
• update DT function (Data)
  • Column visiblity button added
  • Column Reorder feature added
  • may browse table with keyboard (arrow keys)

• csvfileInput.R Not use file’s extension not name. (csv.txt will nor work)
• ggpairs.R apply theme with less if-else

• kaplanModule PPT download

• rocModule

• Change jsRepeatedGadjet to jsRepeatedGadget

• cutoff fix: rocModule

• Add “Show 1-specificity” option

• Histogram(histogramUI, histogramServer)

• Add cutoff information to timerocModule, rocModule when 1 model, 1 indpendent variable.

• timerocModule: Invert plot when auc < 0.5

• Fix cutoff label of Kaplan-meier plot when continuous independent variable

• Boxplot(boxUI, boxServer), Lineplot(LineUI, LineServer), Barplot(BarUI, BarServer)

• Add coxph ties option to coxModule: ties.coxph

• kaplanModule runs even if timeby = 1

• Faster timerocModule: Change AUC/AUC difference 95%CI calculation method to survival::concordance

• Change emf to pptx(editable) in figure download.

• Label info in subgroup analysis: regression, cox

• New module scatterplotUI & scatterplotServer: scatterplot using ggpubr: apply to Basic statistics

• timerocModule, rocModule: Compare ROC curve even if there are different sample size(na omit)

• Change timeby unit from 1 to 0.5 (when <365)

• Add surv.scale option to kaplan-meier plot

• Fix PS matching error with missing values

• Fix according to MatchIt 4.0 update.

• Erratum: Cumulative hazard -> Cumulative incidence

• Show survival probabilities(%) at kaplan-meier plot. This requires jskm 0.4.2 or higher.

• Choose time ranges: coxUI, coxModule.

• Add No initial covariate option when ps calculation

• Add landmark analysis to kaplan-meier analysis. Pease update jskm to 0.4.0 version.

• Add option hide 95%CI of AUC, NRIIDI to timerocModule. It reduces computation time.

• Apply AIC based stepwise selection to linear/logistic regression, cox model.

• Deprecated fucntion: regressModule & logisticModule, please use regressModule2 & logisticModule2

• Add option to tb1module1 ,tb1module2: get simulated p value in Fisher exact test when larger than 2 by 2 tables.

• Add dependency: Cairo package

• PS matching: Duplicated independent variables UI in ROC/timeROC analysis.

• Change minimum timeby in kaplan-meier plot: 1 to 0

• PS matching: Change font size & color of the message with missing value information.

• Cox model of Basic statistics module.

• Incorrect p-value when applying cluster options.

• PS matching: allow continuous variables as Independent variables

• PS matching: allow 1:N matching.

• Update: Stop running ShinyApps by closing the browser window.

• Change reference of categorical variables

• Add line type option to kaplan-meier plot

• Reactive error in propensity score matching.

• Change UI: ROC/time-dependent ROC analysis.

• Choose cut-off value in kaplan-meier analysis with continuous independent variable.

• Add some icons.

• Choose multiple conditions when subsetting data.

• Add caliper option when propensity score matching.

• Make binary variables from contiuous variables.

• Non-normal variables can be summarized with [min,max].

• Add line color, x-axis label option to kaplan-meier plot

• Encoding error when csv file upload.

• Basic statistics with external file: jsBasicExtAddin

• Propensity score analysis with external file: jsPropensityExtAddin

• Repeated measure analysis with external file: jsRepeatedExtAddin

• Survey data analysis with external file: jsSurveyExtAddin

• Regression/Logistic model in jsSurveyAddin.

• Id issue in repeated measure analysis.

• Add scatterplot, ROC/time-dependent ROC analysis.

• Error if repeated measure variable is id.

• Error if there are missing values.

• Error in ROC analysis

• data.frame vs data.table issue.

• Bug fixes: Apply nested survey design to jsSurveyGadget and FileSurveyInput

• Encoding issues when reading sav/sas7bdat/dta formats.

• Default independent variables when running regression/logistic/cox analysis

• Add limit.unires option to regression/logistic/cox analysis to prevent computation burden.

• Shiny module forROC analysis : rocUI rocModule.

• Add this module to jsBasicGadget and jsRepeatedGadjet.

• Apply time-dependent ROC to survey data analysis(jsSurveyGadget)

• Change candidate time variables in survival analysis : allow only > 0

• Add option to change legend, p-value position in kaplan-meier plot

• Time-dependent ROC analysis can allow 1 model.

• Keep original variable’s name in tables/figures

• Change default step of x-axis range.

• Bug fix: time-dependent ROC analysis.

• Bug fix: emf format can recognize figure’s line.

• Add emf format to the plot download modules. You can customize the plot in MS powerpoint.

• Change default time when time-dependent ROC analysis.

• Shiny module for time-dependent ROC analysis : timerocUI timerocModule.

• Add this module to jsBasicGadget and jsRepeatedGadjet.

• Add Kaplan-meier plot options: timeby, x/y-axis ranges.

• Add progress bar to download handlers of scatterplot and kaplan-meier plot.

• Kaplan-meier plot in Basic statistics can use continuous variables as group variables. The module suggest best 5 cuts based on the p-values of logrank test.

• Add number at risk table option to weighted kalan-meier plot.

• Add namespace survival::cluster for marginal cox model.

• Add sub-group analysis based on the range of continuous variable.

• Add multiple factor choice option when doing sub-group analysis based on categorical variable.

• Fix NOTE and examples for cran upload

• You can get Subset data based on the range of continuous variables.

• Add Subset data feature to all Addins and input modules. You can select subset data before analysis.

• Fix warn variable error in regressModule, logisticModule.

• Fix list of except variables in ggpairsModule.

• Fix some spell for cran release.

• Update travis-ci.

• Add appveyor CI to test window environment.

• Warning if there are stongly correlated independent variables in regressModule, jsBasicGadget.

• Show unweighted & weighted table 1 at same tab in jsSurveyGadget

• Initial cluster variable state in jsSurveyGadget

• Add unweighted table 1 to jsSurveyGadget

• Apply list tye independent variables to regressModule, logisticModule, GEEModuleLinear and GEEModuleLogistic

• Change sub-group analysis’s reactive methods: regressModule, logisticModule, GEEModuleLinear and GEEModuleLogistic

• Add marginal cox model option to coxModule, kaplanModule and jsRepeatedGadget

• Add Overall kaplan-meier plot to kaplanModule

• Set default cluster, strata and weights to None in jsSurveyGadget, FileSurveyInput

• Some error comments in coxModule and kaplanModule

• Change default candidate dependent variables to categorical variables with 0, 1 in GEEModuleLogistic, jsRepeatedGadget

• Module for Survival analysis: coxUI, coxModule, kaplanUI and kaplanModule

• Module for ggplot download UI: ggplotdownUI

• Add survival analysis to jsBasicGadget, jsSurveyGadget

• jsPropensityGadget

• Bug fixes : Label information in regressModule, logisticModule

• Update: default.unires option to regressModule, logisticModule

• Update : Apply complex survey design to FileSurvey, regressModule, logisticModule and jsSurveyGadget

• Shiny Gadget for survey data analysis: jsSurveyGadget

• Module for survey data analysis: FileSurvey

• Survey analysis option to regressModule, logisticModule and tb1

• Bug fixes: sub-group option in regressModule, logisticModule, jsPropensityGadget, GEEModuleLinear and GEEModuleLogistic

• Add testthat.

• Modules for repeated measure analysis: FileRepeated, GEEModuleUI, GEEModuleLinear and GEEModuleLogistic

• Shiny Gadget for repeated measure analysis: jsRepeatedGadget

• New option: nfactor.limit in regressModule, logisticModule, jsBasicGadget, csvFileInput and FilePsInput

• regressModule, logisticModule, jsPropensityGadget can deal missing data issue.

• csvFileInput, FilePSInput change variable class integer64 to double.

• Update: Upload Stata .dta format.

• Modify tb1module, tb1module2, tb1simple ,tb1simple2: compatible with updated jstable

• Add sub-group analysis to regressModule, logisticModule and jsPropensityGadget.

• Apply the updated cox2.display function in jstable package to jsPropensityGadget.

• Strata variable in ggpairsModule, ggpairsModule2.

• IPTW table in tb1simple and tb1simple2 modules.

• Kaplan-meier UI in jsPropensityGadget

• tb1module and tb1module2 can control the maximum factor levels to include.

• Bug fixes : Modules for regression exclude NA when selecting binary variables.

• Update : csvFile module can remove empty columns.

• Change regression table function to glmshow.display in jstable package.

• jsPropensityGadget : Propensity score analysis

• Excluded non-normal variable selection feature from tb1simple module.

• Apply original variable names to label information : csvFileInput & FilePsInput functions.

• tb1simpleUI, tb1simple, tb1simple2 for propensity score analysis

• factor variable criteria in csvInput, tb1module and tb1module2

• FilePsInput, FilePs are modules of data input for propensity score calculation.

• Change default data.table & fread check.names option to TRUE

• jsBasicGadget : Basic statistics

• csvFile changes variable name including / to _ and etc.

• Dependency issue with jstable package

• Support sav/sas7bdat formats

• tbmoduleUI, tbmoduleUI2 : some error

• tbmoduleUI, tbmoduleUI2 : Apply shapiro.test

• regressModuleUI, regressModule, regressModule2

• logisticModuleUI, logisticModule, logisticModule2

• ggpairsModuleUI1, ggpairsModuleUI2, ggpairsModule

• regress.display2, logistic.display2 : Regression table for reactive data.

• csvFile : Add n_ to column names that begin with a number.

• tb1moduleUI2 can deal reactive data

• New module: tb1moduleUI, tb1module

• Update: csvFile can deal label information

• File upload: csvFileInput, csvFile

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