Different forward models | Empirical age-depth models | Other ecological gradients and niche definitions | Different models of phenotypic evolution | Different models of event type data | Transforming data from the stratigraphic domain to the time domain | Taphonomy | Transform different types of data | References

S3 class pre_paleoTS | Structure | Construction | Modification | Transformation into other S3 classes | Plotting | S3 class char_mat

Introduction | Stratigraphic Context | Dataset structure | Simulation settings | Platform visualization | References

Overview | Installation | CRAN | GitHub | Dependencies | Example data | Piping | Motivation and usage | Advanced usage | Age-depth models | Defining age-depth models | Plotting | Extracting information | Transforming data | Getting started | References

Introduction | Modeling fossil occurrences and first/last fossil occurrences | Age-depth models | Stratigraphic distortions of "event" type data | Fossil specimens | First/Last occurrences of common taxa | Range offset | Niche modeling | Taphonomic effects | Further reading | References

Integration with the FossilSim package | Stratigraphic basis | Trees with fossils | Ecological effects | Stratigraphic effects | Combined stratigraphic and ecological effects | Technical notes | Integration with paleotree | References

Introduction | Setup | Estimating Markov metrics | Estimating run metrics | Estimating Markov Order Metrics | Check for successive beds with identical facies | Rearrange facies names | estimating the transition matrix | Estimating MOM | Further reading | References

Introduction to the stratcols package | Getting started | Plotting stratigraphic columns | Modifying stratigraphic columns | Further reading

Introduction | S3 classes | S3 class stratcol | Description | Construction | Logic | Representation | Modification | Extracting information | Transformation | fa_tran_mat_c | fa_tran_mat_p | Further reading

Integration with the FossilSim package | Integration with paleotree | References

Introduction | Inputs | Example | Data | Tie points | Sedimentation rates | Estimate age depth model | Coding tie points | Background | Wrappers | Manually coding tie points | Coding sedimentation rates | Manually coding sedimentation rates | Further information

Introduction | Installation | From GitHub | From CRAN | Loading the package | Getting help | The adm and multiadm classes | Conventions | Example | Defining age-depth models | Representation | Extracting data from age-depth models | Transforming data between time and stratigraphic domain | Heights and times | Phylogenetic trees | Lists and time/stratigraphic series | Numeric vectors | Further information | References

Constructing depth-depth curves | Plotting and summaries | Modification

Introduction | S3 Classes | S3 class adm | Description | Construction | Logic | Representation | Modification | Extracting information | Transformation into other S3 classes | S3 class sac | S3 class multiadm | S3 class ddc | S3 classes stratlist and timelist | Methods implemented for external S3 classes | S3 class list | S3 class phylo | S3 class pre_paleoTS | Class numeric | Plotting | Internals | Vignettes

Introduction | Modes of evolution in the time domain | Implemented modes of evolution | Visualization | Stratigraphic domain | Age-depth models | Stratigraphic expression of phenotypic evolution | Prescribing a sampling strategy | Further reading | References

Quick summary | Motivation | Modeling trait evolution on specimen level, complexity reduction, and plotting | Modeling of ecological, taphonomic, and stratigraphic effects | References

Plotting age-depth models | Simple age-depth models (class "adm") | Adding axis labels | Multiple age-depth models (class "multiadm") | Lists in time and stratigraphic domain

Introduction | Idea | Example | Data | Tie points | Tracer values | Estimate age depth model | Coding tie points | Background | Wrappers | Manually coding tie points | Coding tracer data and hypothesis | Manually coding tracer data and hypothesis | Further information | See also