Overview | What belongs in ssdtests | Test organisation | Snapshot stability | Curated-dataset regression tables | Measuring ssdtools coverage | Running the tests

Introduction | Model | New Expression | Modify Data | Select Data & Random Effects | Transformations | Initial Values | nthin | Full Model | Analysis Mode | Analyse | Predictions | Predict | New Data

nlist | nlists | mcmc | list | data frame | term frame

Introduction | chk_ Functions | Overview | Missing Input Checker | ... Checker | External Data Source Checkers | NULL checker | Scalar Checkers | Date or DateTime Checkers | Time Zone Checker | Data Structure Checker | Data Type Checkers | Whole Number Checkers | Factor Checker | All Elements Checkers | Function Checker | Name Checkers | Range Checkers | Equal Checkers | Order Checker | Set Checkers | Class Checkers | REGEX Checker | Quality Checkers (Miscellaneous) | check_ functions | References

Prediction, then measurement | A small worked run | Analysing observed cost | The shard envelope | Comparing predicted against observed | Recalibrating from the run | Across a design | The loop | See also

Why a declarative scenario? | Stage 1: assemble the data | Generated datasets with ssd_gen() | Stage 2: declare the scenario | Dataset input is the collection | min_pmix is referenced by name | dists is a collection of distribution sets | The ci flag | Stage 3: expand into task tables | Stage 4: run the baseline loop | Next: shards, designs, and the targets pipeline | See also

Why estimate cost? | The cost model | The calibration object | Estimating a scenario | From serial total to wall-time | Recalibrating for your machine | Caveats | See also

Start with a single scenario | Migrate: wrap it in a design | Cache-preserving upgrade | Refine: zoom into one region | Notes | See also

What ssdsims is for | Two tracks | A recommended reading order | A 30-second on-ramp

partition_by and bundle: how tasks group into shards | distset: bundled by default, promotable to the path | Run it single core, over shards | Results match the in-memory runner | Scaling up: the targets pipeline | Combining scenarios into a design | Comparing settings in one design | See also

The cluster template | Step 1 — Map your site's SLURM instructions to the controller | Backend prerequisite — the worker install path | Step 2 — Confirm the mapping with the preflight | Step 3 — Run a minimal first job | Step 4 — Swap in your own scenario | Targeting a non-SLURM cluster (untested) | Shard ↔ SLURM-job packing | See also

The destination objects | Run it locally with a dry run | Extend the same call to Azure on a cluster | Verify the upload, in place | What to pay attention to | See also

Introduction | Goal | chk Functions | 1. chk_ Functions | 2. vld_ Functions | 3. check_ Functions | Using chk | Extending chk | abort_chk()

Introduction | What is the issue | What is the impact on the HCx value? | What can be done? | Bias correction using Cox-Snell method - log-normal distribution | Bias correction using Cox-Snell method - gamma distribution | Recommendations

Introduction | Philosophy | Installing | Getting Help | Inputting Data | Fitting Distributions | Coefficients | Plots | Selecting One Distribution | Averaging Multiple Distributions | Estimating the Fit | Hazard/Protection Concentrations | Censored Data | References

Introduction | Methods | Caste study 1 | Case study 2 | Findings | Conclusions and Recommendations | Session Info

Introduction | Methods | Findings | Recommendations | Session Info

How can I plot the model averaged fit and the individual fits? | How can I include mathematical expressions in the x-axis label when using ssd_plot()? | Censoring | What is censored data? | How is censored data coded in ssdtools? | What are the current limitations on analyzing censored data?

Usage | Changing temperature min and max parameters | Changing rate of change parameters | Removing the time buffer | Removing the gap filling | Process

Two Ecotypes | Fish | Stock-Recruitment | Yield

Configure | Run | Reconfigure | Rerun | Clean Up

Simple lists | Paragraph lists | Nested lists

Heading 2 | A heading with code | Heading 3a | Heading 3b | Heading 4a | Heading 4b | Heading 4c

Introduction | Growth | Length | Weight | Reproduction | Fecundity | Spawning | Death | Natural Mortality | Fishing Mortality | Recruitment | Yield | Efficiency | References

Starting | Writing Data | Exists | Foreign Keys | Committing Data | Deleting Data (and Meta Data) | Replacing Data | Duplicate Data | All Data | Strict | Silent | Reading Data | Cleaning Up

Primary Objects | Scalars | Other Objects | Function Functions | Data Functions | Miscellaneous Functions

Package Overview | base | assertthat | checkmate | checkr | Package Comparison | Return Values | Custom Error Messages | Speed | Dependencies

Weight vs Length | Fecundity vs Length | Fecundity vs Weight