What happens inside | Spatial data | Reading a shapefile | TDA's help | Running TDA directly | The expression language | Character data | Graphs

TDA, and this package | 3 Data Structures | 3.3.3 An Example Data Set | 3.6.2 Graph Data | 3.6.5 Drawing Graphs | 3.6.6 Trees | 3.4.2 Sequence Data Types | 3.4.3 Printing Sequence Data | 3.4.5 State Indicators | 3.3.5 Joining Episode Data | 4 PostScript Plots | 4.1 Preparing the Plot Environment | 4.2 Plotting Coordinate Systems | 4.3 Combining Plot Files | 4.4.1 Polygons and Scatterplots | 4.4.3 Plotting Text | 4.4.5 Step Functions | 4.4.6 General Functions | 4.4.7 Arrows | 4.4.8 Circles, Arcs, Ellipses | 4.4.9 Convex Hull | 4.4.10 Smoothing Polygons | 4.4.11 Contour Plots | 5 Mathematical Procedures | 5.1.2 Matrices | 5.1.4.1 Elementary Matrix Commands | 5.1.4.2 Sorting and Ranking | 5.1.4.3 Standardization and Scaling | 5.1.4.4 Matrix Norms | 5.1.4.5 Inverse Matrices | 5.1.4.6 Cholesky Decomposition | 5.1.4.7 Least Squares Regression | 5.1.4.8 Linear Equations | 5.1.4.9 Linear Inequalities | 5.1.4.11 Eigenvalues and Eigenvectors | 5.1.4.12 Singular Value Decomposition | 5.1.4.13 Linear Programming | 5.1.4.14 Some Further Commands | 5.2.2 Evaluating Expressions | 5.2.4 Random Numbers | 5.2.6.6 Counting Changes | 5.2.6.7 Aggregates | 5.3.3 Evaluating Functions | 5.4.1 Commands for Numerical Integration | 5.4.2 Operators for Numerical Integration | 5.5.1 Moving Averages | 5.5.2 Running Median Smoothers | 5.5.3 Smoothing Splines | 5.6.1 The fmin Command | 6 Statistical Procedures | 6.2.1 Mean and Range of Variables | 6.2.2 Empirical Distribution Functions | 6.2.3 Quantiles | 6.2.4 Frequency Tables | 6.2.5 Aggregated Tables | 6.2.6 Covariance and Correlation | 6.2.7 Contingency Measures | 6.2.8 Scatterplots | 6.2.9 Histogram Plots | 6.2.10 Density Plots | 6.4.2 Inequality Measures | 6.4.3 Segregation Indices | 6.5.1 Life Tables | 6.5.2 Kaplan-Meier Procedure | 6.5.3 Survivor Function Quantiles | 6.5.4 Comparing Survivor Functions | 6.5.5 State Distributions | 6.6.1 Sequence Length and Gaps | 6.6.2 General Characteristics | 6.6.3 State Distributions | 6.6.4 Pattern Matching | 6.7.2.2 The seqm Command | 6.7.2.3 Examples | 6.7.2.4 Consecutive Indel Operations | 6.7.2.5 Data-based Substitution Costs | 6.9.1 The lsreg Command | 6.9.1.2 Parameter Constraints | 6.9.1.3 Dummy Variables | 6.10.1 L1-Norm Regression | 6.10.2 Nonparametric Regression | 6.11.2 The fml Command | 6.12.2 Binary Logit and Probit | 6.12.2.1 Grouped Data | 6.12.3 Ordinal Logit and Probit | 6.12.4 Multinomial Logit | 6.12.5 Multivariate Probit | 6.14.1 Poisson Regression | 6.14.2 Compound Poisson Models | 6.15.2.1 Generalized Linear Models | 6.15.2.2 Binomial Models | 6.15.2.3 Poisson Models | 6.15.2.4 Gamma Models | 6.15.2.5 Inverse Gaussian Models | 6.16.1 The freg Command | 6.17.2.1 The Basic Exponential Model | 6.17.2.2 Models with Time Periods | 6.17.2.3 Period-specific Effects | 6.17.3 Parametric Duration Dependence | 6.17.3.1 Polynomial Rates | 6.17.3.2 Gompertz-Makeham Models | 6.17.3.3 Weibull Models | 6.17.3.4 Sickle Models | 6.17.3.5 Log-logistic Models | 6.17.3.6 Log-normal Models | 6.17.3.7 Generalized Gamma Models | 6.17.3.8 Inverse Gaussian Models | 6.17.5.1 The frml Command | 6.17.5.2 The Hernes Model | 6.17.5.3 The Coale-McNeil Model | 6.17.6.2 Logistic Regression Models | 6.17.6.3 Complementary Log-Log Models | 6.17.7.1 Partial Likelihood Estimation | 6.17.7.2 Time-dependent Covariates | 6.17.7.3 Episode Splitting | 6.17.7.4 The Proportionality Assumption | 6.17.7.5 Stratification | 6.17.7.6 The Baseline Rate | 6.18.2 Investigating Events | 6.18.3 Data Generation | 6.19.1 Contingency Tables | 6.19.2 Loglinear Models | 7 Relational Data | 7.2.1.1 Degree of Nodes | 7.2.1.2 Direct Links | 7.2.2.1 Topological Sorting | 7.2.3.1 Connected Components | 7.2.3.2 Reachable Nodes in Directed Graphs | 7.2.3.3 Cut Nodes and Blocks | 7.2.4.1 Enumeration of Paths | 7.2.4.2 All Shortest Paths | 7.2.4.3 Transitive Closure | 7.2.5.1 Depth-first Spanning Trees | 7.2.5.2 Minimum Spanning Trees | 7.2.5.3 Enumeration of Spanning Trees | 7.2.6.1 Fundamental Set of Cycles | 7.2.6.2 Enumeration of Cycles in Directed Graphs | 7.2.8.1 Maximal Flows | 7.2.9.1 Cliques | 7.2.9.2 Compact Sets | 7.2.9.3 Regular Equivalence | 7.3.1.1 The Linear Assignment Problem | 7.3.1.2 The Quadratic Assignment Problem | 7.5.1.1 SAHN Algorithms | 7.5.1.2 Nearest-Neighbor Clustering | 7.5.2.1 Maximally Different Cluster Centers | 7.5.2.2 Maximally Homogeneous Clusters | 7.5.3.1 The Bond Energy Algorithm | 7.6.1.1 Direct and Indirect Control | 7.6.1.2 Control | 7.6.1.3 Measures of Flow Centrality | 8 Set-valued Data | 8.3.2 Evaluation of Inclusion Functions | 8.4.1 The gmin Command | 8.4.2 The range Command | 8.5.1 Set-valued Discrete Variables | 8.5.2 Interval-valued Variables | 8.6.1 Mean Values | 8.6.2 Variances

2. Event History Data Structures | 3. Descriptive Methods | 4. Exponential Transition Rate Models | 5. Piecewise Constant Exponential Models | 6. Exponential Models with Time-dependent Covariates | 7. Parametric Models of Time-dependence | 8. Methods to Check Parametric Assumptions | 9. Semi-parametric Transition Rate Models | 10. Models with a Mixture Distribution

Basic Examples | write.xlsx | write list of data.frames to xlsx-file | write.xlsx also accepts styling parameters | The simplest way is to set default options and set column class | Workbook styles | define a style for column headers | When writing a list, the stylings will apply to all list elements | write.xlsx returns the workbook object for further editing | Workbook creation walk-through | create workbook and set default border Colour and style | Add Sheets | write data to sheet 1 | write data to sheet 2 | add write group means | add write group variances | add style mean & variance table headers | save workbook | Gallery | Further Examples | Stock Price | Image Compression using PCA

First steps | Handling workbooks | Importing as workbook | Exporting data | Exporting data frames or vectors | Exporting a wbWorkbook | dims/ wb_dims() | A note on speed and memory usage

Add plot to workbook | Add {ggplot2} plot to workbook | Add plot via | Adding {encharter} plots | Add and fill a chartsheet | Add {mschart} plots

Styling showcase | Colors, text rotation and number formats | the quick way: using high-level functions | the long way: using bare-metal functions | Working with number formats | numfmts | numfmts2 | Modifying the column widths | wb_set_col_widths | Adding borders | add borders | styled table | the long way: creating everything from the bone | Use workbook colors and modify them | Copy cell styles | Style strings | Create custom table styles

Importing data | Basic import | col_names - first row as column name | detect_dates - convert cells to R dates | show_formula - show formulas instead of results | dims - read specific dimension | cols - read selected columns | rows - read selected rows | convert - convert input to guessed type | skip_empty_rows - remove empty rows | skip_empty_cols - remove empty columns | row_names - keep rownames from input | types - convert column to specific type | start_row - where to begin | na - define missing values

Rule applies to all each cell in range | Highlight row dependent on first cell in row | Highlight column dependent on first cell in column | Highlight cell dependent on | Highlight entire range cols X rows dependent only on cell A1 | Highlight cells in column 1 based on value in column 2 | Highlight duplicates using default style | Cells containing text | Cells not containing text | Cells begins with text | Cells ends with text | Colorscale colors cells based on cell value | Databars | Between | Top N | Bottom N | Logical Operators

Basic read and write functions | Read xlsx or xlsm files | Write xlsx files | Basic workbook functions | Loading a workbook | Styles | Conditional formatting | Data validation | Saving | Why openxlsx2? | Invitation to contribute

Simple formulas | Array formulas | Array formulas creating multiple fields | cells metadata (cm) formulas | dataTable formulas^[this example was originally provided by @zykezero for openxlsx.] | dataTable formula differences

Formatting with writeData and writeDataTable | Use of pre-defined table styles | Date Formatting | DateTime Formatting | Conditional Formatting | Numeric Formatting

readspss -- importing SPSS files to R | Installation | Import | Import options | Import details | Export | Package development | Thanks | Last words