NEWS.md

jsmodule 2.0.1

Update

• Generalized all variable names in AI Assistant prompts to use placeholder patterns (_var suffix), making code examples applicable to any dataset instead of being tied to specific example data (e.g., age, sex, time, status, rx).
• Added # IMPORTANT: Replace with your actual variable names comments to all code examples in AI prompts to guide users in adapting generated code to their data.
• Improved AI Assistant prompt clarity by replacing dataset-specific examples with generic placeholders across all statistical analysis sections.

Bugfix

• Fixed AI Assistant result handling to properly support mixed result types (tables, plots, and flextables) returned from analysis code.

jsmodule 2.0.0

New Features

• Introduced the jsmodule AI Assistant, which connects to Anthropic, OpenAI, and Google LLMs so you can generate analyses, scripts, and export-ready visuals without leaving the app.
• The assistant automatically leverages context captured in Data Manager, enabling follow-up questions that reference earlier tables or plots.
• Prompts never include row-level data, and the execution sandbox blocks dangerous calls, preventing direct data exposure and prompt-injection attacks.

Update

• Unified AI configuration panel with provider picker, API-key validation, and automatic model discovery for each provider.
• Model-aware code generation with integrated editing, execution, and copy-to-clipboard shortcuts plus toast confirmations.
• Conversation history with live rendering of user/assistant messages, downloadable transcripts, and per-session token/cost tracking.
• Result viewers for tables, plots, and flextables, including export options to PPTX, Word, Excel, and TXT.
• Contextual helper actions (error-to-prompt conversion, code summary, save chat) to streamline iterative AI-assisted analysis.

jsmodule 1.6.15

Refactor

• Introduced DataManager R6 class to streamline data loading and preprocessing across Shiny modules, reducing code duplication.

jsmodule 1.6.14

Update

• Added a checkbox to select the style of p-value: exact number or stars.
• Added a optionUI feature in scatter plot including color pallette feat.

Bugfix

• Fixed an error for the boxplot.

jsmodule 1.6.13

Update

• Added an option to the Kaplan-Meier module to show censored counts in the numbers-at-risk table. When enabled, default label is automatically extended from "Numbers at risk" to "Numbers at risk (number censored)".
• Added AUC and Brier Score metrics for time-dependent ROC analysis
• Harrell’s C-index now updates dynamically based on the selected analysis time.

Bugfix

• Fixed an error when selecting factor (categorical) predictors in ROC analysis.
• Fixed an error for geeglm caused by unsorted cluster id (now sorted before fitting).

jsmodule 1.6.12

Update

• refactor ROC time dependent table function (remove for statement)
• add new column in ROC time dependent table (CI & p-value difference of AUC & Brier)

Bugfix

• "survive"" library dependent issue in ROC time dependent feat
• remove error message when add new model in ROC time dependent feat
• fix remove model button that remain removed label issue in ROC time dependent feat

jsmodule 1.6.11

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

jsmodule 1.6.10

• 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.

jsmodule 1.6.9

Update

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

jsmodule 1.6.8

Update

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

jsmodule 1.6.7

Update

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

jsmodule 1.6.6

Update

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

jsmodule 1.6.5

Update

• 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.

jsmodule 1.6.4

Update

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

jsmodule 1.6.3

Update

• 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.

jsmodule 1.6.2

Update

• Add options to customize x axis ticks in forest plot

jsmodule 1.6.1

Update

• 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.

jsmodule 1.6.0

Update

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

jsmodule 1.5.10

Update:

• Change Boxplot fill type

jsmodule 1.5.9

Bugfix:

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

jsmodule 1.5.8

Update

• Add label option on lineplot

jsmodule 1.5.7

Bugfix:

• Fix 2 group factor not working problem in forestcoxServer

jsmodule 1.5.6

Bugfix:

• Fix var_label displaying incorrectly when loading .sav file

jsmodule 1.5.5

Update

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

jsmodule 1.5.4

Update

• Apply SPSS label info (Thanks for Jinhwan Kim)

jsmodule 1.5.3

Bugfix:

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

jsmodule 1.5.2

Update:

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

jsmodule 1.5.1

Update:

• Add Subgroupanalysis to jsBasicGadget
• Add figure in subgroup analysis with forestplot
• Add family 'poisson' in forestglm
• Add "line size" "point size" to lineplot

jsmodule 1.5.0

New module:

• Subgroup analysis with forestplot (Thanks for Yoonkyoung Jeon)

• forestcox (forestcoxUI, forestcoxServer)
• forestglm (forestglmUI, forestglmServer)

jsmodule 1.4.4

Update:

• Add "reverse y-axis" option to lineplot

jsmodule 1.4.3

Update

• rocModule: Add accucary/ppv/npv with threshold

jsmodule 1.4.2

Update:

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

jsmodule 1.4.1

Error fix: jsBasicExtAddin, jsBasicGatget

jsmodule 1.4.0

Fix :

• update deprecated icon (Plot panel)

Update :

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)

Refactor:

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

jsmodule 1.3.6

Fix:

• kaplanModule PPT download

jsmodule 1.3.5

Fix:

• rocModule

• Change jsRepeatedGadjet to jsRepeatedGadget

jsmodule 1.3.4

Fix and Update: rocModule

• cutoff fix: rocModule

• Add "Show 1-specificity" option

jsmodule 1.3.3

New module (Thanks for Changwoo Lim)

• Histogram(histogramUI, histogramServer)

jsmodule 1.3.2

Update

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

Fix

• timerocModule: Invert plot when auc < 0.5

jsmodule 1.3.1

Fix

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

jsmodule 1.3.0

New module (Thanks for Hyunki Lee)

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

jsmodule 1.2.0

Update

• Add coxph ties option to coxModule: ties.coxph

Bugfix

• kaplanModule runs even if timeby = 1

jsmodule 1.1.9

Update

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

jsmodule 1.1.8

Update

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

jsmodule 1.1.7

Bug fix

• Label info in subgroup analysis: regression, cox

jsmodule 1.1.6

Fix & update

• 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

jsmodule 1.1.5

Fix

• Fix according to MatchIt 4.0 update.

• Erratum: Cumulative hazard -> Cumulative incidence

jsmodule 1.1.4

Update

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

jsmodule 1.1.3

Update

• Choose time ranges: coxUI, coxModule.

jsmodule 1.1.2

Update

• Add No initial covariate option when ps calculation

jsmodule 1.1.1

Update

• 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.

jsmodule 1.1.0

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

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

jsmodule 1.0.8

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

jsmodule 1.0.7

Dependency

• Add dependency: Cairo package

jsmodule 1.0.6

Bug fix

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

Update

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

jsmodule 1.0.5

Update

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

jsmodule 1.0.4

Bug fixes

• Cox model of Basic statistics module.

jsmodule 1.0.3

Bug fixes

• Incorrect p-value when applying cluster options.

• PS matching: allow continuous variables as Independent variables

Update

• PS matching: allow 1:N matching.

jsmodule 1.0.2

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

jsmodule 1.0.1

Update

• Change reference of categorical variables

• Add line type option to kaplan-meier plot

Bug fixes

• Reactive error in propensity score matching.

jsmodule 1.0.0

Update

• 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

Bug fixes

• Encoding error when csv file upload.

jsmodule 0.9.9

New addins

• 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

Bug fixes

• Regression/Logistic model in jsSurveyAddin.

• Id issue in repeated measure analysis.

jsmodule 0.9.3

Update: Propensity score analysis

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

Bug fixes: repeated measure analysis

• Error if repeated measure variable is id.

• Error if there are missing values.

Bug fixes: survey data analysis

• Error in ROC analysis

Bug fixes: Table 1

• data.frame vs data.table issue.

jsmodule 0.9.2

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

jsmodule 0.9.1

Bug fixes

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

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

Update

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

jsmodule 0.9.0

New module

• Shiny module forROC analysis : rocUI rocModule.

• Add this module to jsBasicGadget and jsRepeatedGadjet.

Update

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

jsmodule 0.8.6

Update

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

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

Bug fixes

• Time-dependent ROC analysis can allow 1 model.

jsmodule 0.8.5

• Keep original variable's name in tables/figures

jsmodule 0.8.4

• Change default step of x-axis range.

jsmodule 0.8.3

• Bug fix: time-dependent ROC analysis.

jsmodule 0.8.2.1

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

jsmodule 0.8.2

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

jsmodule 0.8.1

• Change default time when time-dependent ROC analysis.

jsmodule 0.8.0

New module

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

• Add this module to jsBasicGadget and jsRepeatedGadjet.

jsmodule 0.7.10

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

jsmodule 0.7.9

Update

• 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.

Bug fixes

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

jsmodule 0.7.8

Update

• 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.

jsmodule 0.7.7

• Fix NOTE and examples for cran upload

jsmodule 0.7.6

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

jsmodule 0.7.5

Update

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

Bug fixes

• Fix warn variable error in regressModule, logisticModule.

• Fix list of except variables in ggpairsModule.

jsmodule 0.6.9

Bug fixes

• Fix some spell for cran release.

Update

• Update travis-ci.

• Add appveyor CI to test window environment.

jsmodule 0.6.8

Update

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

jsmodule 0.6.7

Update

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

Bug fixes

• Initial cluster variable state in jsSurveyGadget

jsmodule 0.6.6

Update

• Add unweighted table 1 to jsSurveyGadget

Bug fixes

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

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

jsmodule 0.6.5

Update

• 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

Bug fixes

• Some error comments in coxModule and kaplanModule

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

jsmodule 0.6.4

New module

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

• Module for ggplot download UI: ggplotdownUI

Update

• Add survival analysis to jsBasicGadget, jsSurveyGadget

Bug fixes

• jsPropensityGadget

jsmodule 0.6.2

• Bug fixes : Label information in regressModule, logisticModule

• Update: default.unires option to regressModule, logisticModule

jsmodule 0.6.1

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

jsmodule 0.6.0

New Gadget

• Shiny Gadget for survey data analysis: jsSurveyGadget

New module

• Module for survey data analysis: FileSurvey

Update

• Survey analysis option to regressModule, logisticModule and tb1

jsmodule 0.5.7

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

jsmodule 0.5.6

• Add testthat.

jsmodule 0.5.5

New module

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

New Gadget

• Shiny Gadget for repeated measure analysis: jsRepeatedGadget

jsmodule 0.5.3

Update

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

Bug fixes

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

• csvFileInput, FilePSInput change variable class integer64 to double.

jsmodule 0.5.2

• Update: Upload Stata .dta format.

jsmodule 0.5.1

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

jsmodule 0.5.0

Update

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

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

Typo

• Strata variable in ggpairsModule, ggpairsModule2.

jsmodule 0.4.9

Bug fixes

• IPTW table in tb1simple and tb1simple2 modules.

• Kaplan-meier UI in jsPropensityGadget

jsmodude 0.4.8

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

jsmodule 0.4.6

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

jsmodule 0.4.5

• Update : csvFile module can remove empty columns.

jsmodule 0.4.4

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

jsmodule 0.4.3

New gadget

• jsPropensityGadget : Propensity score analysis

Update

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

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

jsmodule 0.4.0

New module

• tb1simpleUI, tb1simple, tb1simple2 for propensity score analysis

jsmodule 0.3.7

Bug fixes

• factor variable criteria in csvInput, tb1module and tb1module2

jsmodule 0.3.6

New module

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

Minor update

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

jsmodule 0.3.5

New gadget

• jsBasicGadget : Basic statistics

Minor update

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

Bug fixes

• Dependency issue with jstable package

jsmodule 0.3.1

Minor update

• Support sav/sas7bdat formats

Bug fixes:

• tbmoduleUI, tbmoduleUI2 : some error

jsmodule 0.3.0

Bug fixes:

• tbmoduleUI, tbmoduleUI2 : Apply shapiro.test

New module

• regressModuleUI, regressModule, regressModule2

• logisticModuleUI, logisticModule, logisticModule2

• ggpairsModuleUI1, ggpairsModuleUI2, ggpairsModule

New function

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

jsmodule 0.2.5

Update

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

New module

• tb1moduleUI2 can deal reactive data

jsmodule 0.2.0

• New module: tb1moduleUI, tb1module

jsmodule 0.1.0

• Update: csvFile can deal label information

jsmodule 0.0.1

• File upload: csvFileInput, csvFile