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epiverse-trace
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epichains
Methods for simulating and analysing the sizes and lengths of infectious disease transmission chains from branching process models
https://epiverse-trace.github.io/epichains/
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Improve `simulate_*()` functions: Rename columns + improve object names + comments
#242
jamesmbaazam
closed
6 months ago
7
Bump JamesIves/github-pages-deploy-action from 4.5.0 to 4.6.0
#241
dependabot[bot]
closed
7 months ago
0
Make `summary` find max of all values including `Inf` and print `>= stat_max` if max is `Inf`
#240
jamesmbaazam
closed
8 months ago
1
Should `summary()` report infinite outbreaks as max?
#239
sbfnk
closed
8 months ago
6
Column names switched in return value of `simulate_chains`
#238
sbfnk
closed
6 months ago
1
Clarify `stat_max`
#237
jamesmbaazam
closed
6 months ago
9
Improve function argument documentation
#236
jamesmbaazam
closed
8 months ago
1
Rename `simulate_summary()` to `simulate_chain_stats()` for clarity
#235
jamesmbaazam
closed
6 months ago
2
Improve Getting Started vignette
#234
jamesmbaazam
closed
8 months ago
3
Improve documentation of `nsim_obs` and `obs_prob`
#233
jamesmbaazam
closed
8 months ago
1
dependabot workflow: Fix "label" option
#232
jamesmbaazam
closed
8 months ago
0
Improve documentation of `nsim_obs` and `obs_prob` in `likelihood()`
#231
jamesmbaazam
closed
8 months ago
0
Expand on meaning of `infinite` in `borel` functions
#230
jamesmbaazam
closed
8 months ago
1
Bump JamesIves/github-pages-deploy-action from 4.1.4 to 4.5.0
#229
dependabot[bot]
closed
8 months ago
1
Bump actions/checkout from 3 to 4
#228
dependabot[bot]
closed
8 months ago
1
Fix dependabot workflow
#227
jamesmbaazam
closed
8 months ago
0
Add quick start example in README
#226
jamesmbaazam
closed
8 months ago
0
Make non-user facing functions internal
#225
jamesmbaazam
closed
8 months ago
1
Remove `rbinom_mean_disp()`
#224
jamesmbaazam
closed
8 months ago
0
Fix render-readme: use workflow from `{packagetemplate}`
#223
jamesmbaazam
closed
8 months ago
0
Use `checkmate` naming conventions for internal input checkers
#222
jamesmbaazam
opened
8 months ago
0
Trigger render-readme
#221
jamesmbaazam
closed
8 months ago
0
Improve input checking of class constructors
#220
jamesmbaazam
closed
8 months ago
1
Remove `rnbinom_mean_disp()`
#219
jamesmbaazam
closed
8 months ago
0
Rename `<epichains_tree>` class to `<epichains>`
#218
jamesmbaazam
closed
8 months ago
1
Add paragraph linking to analogous vignette in {superspreading}
#217
jamesmbaazam
closed
8 months ago
0
Add related packages section to README
#216
jamesmbaazam
closed
8 months ago
1
Move `obs_prob` next to `nsim_obs` for logical flow in `likelihood()` signature
#215
jamesmbaazam
closed
8 months ago
0
Name all Rmd chunks
#214
jamesmbaazam
closed
8 months ago
0
Make `likelihood()` work with `<epichains_summary>`, `<epichains>`, and `<numeric>` objects
#213
jamesmbaazam
closed
6 months ago
4
Not for merge - benchmark `summary(<epichains_tree>)` vs `simulate_summary()`
#212
jamesmbaazam
closed
6 months ago
3
Make `rborel()` return a numeric vector instead of an `<epichains_summary>` object
#211
jamesmbaazam
closed
9 months ago
0
Revise summary.epichains_tree to return <epichains_summary>
#210
jamesmbaazam
closed
9 months ago
2
Add dependabot workflow to update GitHub Actions versions
#209
jamesmbaazam
closed
9 months ago
0
Fix ORCID links
#208
chartgerink
closed
9 months ago
1
Make `likelihood()` return a list of all options
#207
jamesmbaazam
opened
9 months ago
2
Add dependabot workflow to update GitHub Actions versions
#206
jamesmbaazam
closed
9 months ago
0
Make `switch()` statements error when there's no match
#205
jamesmbaazam
closed
9 months ago
1
Interpret offspring distribution as degree distribution
#204
sbfnk
opened
9 months ago
4
Add package reviewers
#203
jamesmbaazam
closed
9 months ago
1
Update contributing guide to refer to epichains
#202
jamesmbaazam
closed
9 months ago
0
Add examples to all exported functions and set seed where missing
#201
jamesmbaazam
closed
9 months ago
1
All `switch()` statements must error if there are no matches
#200
jamesmbaazam
closed
9 months ago
0
Convert duplicated code into helper functions
#199
jamesmbaazam
closed
9 months ago
1
Update package credits: add reviewers and contributors
#198
jamesmbaazam
closed
9 months ago
0
Restore cyclocomp_linter defaults
#197
jamesmbaazam
closed
10 months ago
0
Return `complexity_limit` in `cyclocomp_linter` to `15L`
#196
sbfnk
closed
10 months ago
0
`simulate_summary()`: Enhance to track finite populations & improve documentation
#195
jamesmbaazam
closed
9 months ago
1
Misc suggestions for simulate_chains()
#194
Bisaloo
closed
10 months ago
1
Fix disparities in meaning of `stat_max` in various functions
#193
jamesmbaazam
closed
6 months ago
1
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