|
1 | 1 | # Changelog |
2 | 2 |
|
3 | | -## [0.2.6] - XXXXXXXXXX |
| 3 | +## [0.2.6] - 2026-03-06 |
| 4 | + |
| 5 | +Maintenance release. |
| 6 | + |
| 7 | +- Python >= 3.11 is required. |
4 | 8 |
|
5 | 9 |
|
6 | 10 | ## [0.2.5] - 2026-02-03 |
|
221 | 225 | - The algorithm now operates completely in unscaled time (in units of generations) under |
222 | 226 | the hood, which means that `tsdate.build_prior_grid` now requires the parameter |
223 | 227 | `Ne`. |
224 | | -- Users now have access to the marginal posterior distributions on node age by running |
| 228 | +- Users now have access to the marginal posterior distributions on node age by running |
225 | 229 | `tsdate.get_dates`, though this is undocumented for now. |
226 | 230 |
|
227 | 231 | **Bugfixes** |
|
234 | 238 |
|
235 | 239 | **Features** |
236 | 240 |
|
237 | | -- Two new methods, `tsdate.sites_time_from_ts` and `tsdate.add_sampledata_times`, |
| 241 | +- Two new methods, `tsdate.sites_time_from_ts` and `tsdate.add_sampledata_times`, |
238 | 242 | support inference of tree sequences from non-contemporaneous samples. |
239 | | -- New tutorial on inferring tree sequences from modern and historic/ancient samples |
| 243 | +- New tutorial on inferring tree sequences from modern and historic/ancient samples |
240 | 244 | explains how to use these functions in conjunction with `tsinfer`. |
241 | | -- `tsdate.preprocess_ts` supports dating inferred tree sequences which include large, |
242 | | - uninformative stretches (i.e. centromeres and telomeres). Simply run this function |
| 245 | +- `tsdate.preprocess_ts` supports dating inferred tree sequences which include large, |
| 246 | + uninformative stretches (i.e. centromeres and telomeres). Simply run this function |
243 | 247 | on the tree sequence before dating it. |
244 | | -- `ignore_outside` is a new parameter in the outside pass which tells `tsdate` to |
| 248 | +- `ignore_outside` is a new parameter in the outside pass which tells `tsdate` to |
245 | 249 | ignore edges from oldest root (these edges are often of low quality in `tsinfer` |
246 | 250 | inferred tree sequences) |
247 | 251 | - Development environment is now equivalent to other `tskit-dev` projects |
|
251 | 255 |
|
252 | 256 | - Improve user experience with more progress bars and logging. |
253 | 257 | - Slightly change traversal method in outside and outside maximization algorithms, |
254 | | - this should only affect inference on inferred tree sequences with large numbers |
| 258 | + this should only affect inference on inferred tree sequences with large numbers |
255 | 259 | of nodes at the same frequency. |
256 | 260 | - Improve reporting of current project version |
257 | 261 | - Use appdirs for default caching location |
|
0 commit comments