Ecosyste.ms: Issues

An open API service for providing issue and pull request metadata for open source projects.

GitHub / tskit-dev/tsdate issues and pull requests

#208 - Error in assignment?

Issue - State: closed - Opened by benjeffery over 2 years ago - 14 comments

#207 - Update pre-commit

Pull Request - State: closed - Opened by benjeffery over 2 years ago

#206 - iwt --- OverflowError: int too large to convert to float

Issue - State: closed - Opened by chlangley over 2 years ago - 2 comments

#205 - Make CI single threaded

Pull Request - State: closed - Opened by benjeffery over 2 years ago

#204 - Fix approx checks

Pull Request - State: closed - Opened by benjeffery over 2 years ago - 2 comments

#203 - Set node metadata schema

Issue - State: closed - Opened by hyanwong over 2 years ago - 11 comments

#202 - Add population_size as alias for Ne

Issue - State: closed - Opened by hyanwong over 2 years ago - 3 comments

#201 - Default to not filtering sites, pops, indivs in preprocess

Pull Request - State: closed - Opened by hyanwong over 2 years ago - 3 comments

#200 - fix mutation rate in tests, re-add historical examples test

Pull Request - State: closed - Opened by hyanwong over 2 years ago - 1 comment

#199 - Update readme to cite Science paper

Pull Request - State: closed - Opened by hyanwong over 2 years ago - 9 comments

#197 - circleci failing, but tests pass locally?

Issue - State: closed - Opened by awohns over 2 years ago - 11 comments

#195 - Return posterior and set time_units

Pull Request - State: closed - Opened by hyanwong over 2 years ago

#194 - Modify tables

Pull Request - State: closed - Opened by hyanwong over 2 years ago - 1 comment

#193 - Upgrade circle CI image

Pull Request - State: closed - Opened by benjeffery over 2 years ago - 4 comments

#192 - Use new append functionality

Pull Request - State: closed - Opened by hyanwong over 2 years ago - 2 comments

#191 - Add tutorial for reinferring tsinfer tree sequences using estimated dates

Issue - State: open - Opened by awohns over 2 years ago - 3 comments
Labels: documentation

#190 - Sampling times from posterior

Issue - State: closed - Opened by awohns over 2 years ago - 9 comments
Labels: enhancement

#189 - Support time units in tree sequence

Issue - State: closed - Opened by awohns over 2 years ago - 2 comments

#188 - require mutation_rate, fail if unsimplified

Pull Request - State: closed - Opened by awohns over 2 years ago - 7 comments

#187 - require that tree sequences are simplified

Issue - State: closed - Opened by awohns over 2 years ago - 5 comments

#186 - Add LiTI to Tsdate?

Issue - State: closed - Opened by swamidass almost 3 years ago - 2 comments

#185 - mutation_rate as a required parameter

Issue - State: closed - Opened by awohns almost 3 years ago - 2 comments

#184 - update CHANGELOG

Pull Request - State: closed - Opened by awohns about 3 years ago

#183 - remove typed list and pin numba

Pull Request - State: closed - Opened by awohns about 3 years ago

#182 - What is a solution to the dangling nodes error?

Issue - State: open - Opened by stsmall about 3 years ago - 1 comment

#181 - Export get_dates (without documentation)

Pull Request - State: closed - Opened by awohns about 3 years ago

#180 - Rename date.py

Pull Request - State: closed - Opened by awohns about 3 years ago

#179 - Add option for a flat prior

Issue - State: closed - Opened by awohns about 3 years ago - 11 comments

#178 - Change preprocess_ts() defaults

Issue - State: closed - Opened by awohns about 3 years ago - 2 comments

#177 - add citation information to documentation

Pull Request - State: closed - Opened by awohns about 3 years ago

#175 - fix numba deprecation

Pull Request - State: closed - Opened by awohns about 3 years ago

#174 - Numba type scheduled for deprecation

Issue - State: closed - Opened by hyanwong about 3 years ago - 5 comments

#173 - Use .tobytes() instead of deprecated .tostring()

Pull Request - State: closed - Opened by hyanwong about 3 years ago

#172 - Use num_edges directly

Pull Request - State: closed - Opened by hyanwong about 3 years ago - 2 comments

#171 - Address underflow in log-sum-exp

Pull Request - State: closed - Opened by awohns over 3 years ago - 8 comments

#170 - citation information

Issue - State: closed - Opened by agladstein over 3 years ago - 1 comment

#169 - fix race condition, again

Pull Request - State: closed - Opened by awohns over 3 years ago

#167 - Build wheels

Pull Request - State: closed - Opened by benjeffery over 3 years ago

#166 - Assessing best avenues for improved date estimation.

Issue - State: open - Opened by hyanwong over 3 years ago - 7 comments

#165 - Loopy Belief Propagation

Issue - State: closed - Opened by awohns over 3 years ago - 7 comments

#161 - fix race condition tests

Pull Request - State: closed - Opened by awohns over 3 years ago

#156 - Use Unscaled Time Internally

Pull Request - State: closed - Opened by awohns over 3 years ago - 7 comments

#144 - Add 'remove_historical_samples' option to preprocess_ts?

Issue - State: open - Opened by hyanwong over 3 years ago

#139 - Move repo to tskit-dev

Issue - State: closed - Opened by awohns over 3 years ago - 12 comments

#137 - Should we continue to use coalescent time internally?

Issue - State: closed - Opened by hyanwong over 3 years ago - 5 comments

#118 - Caching issue

Pull Request - State: closed - Opened by awohns over 4 years ago

#117 - circleci caching

Pull Request - State: closed - Opened by awohns over 4 years ago

#96 - Simplify root iterations & ts checking using new `root_threshold `

Issue - State: closed - Opened by hyanwong over 4 years ago - 3 comments

#95 - Lognormal, probability_space framework, correct logic, more tests

Pull Request - State: closed - Opened by awohns over 4 years ago - 1 comment

#94 - Maximization performs worse than inside-outside: Improvements?

Issue - State: closed - Opened by awohns over 4 years ago

#80 - added support for internal samples, more tests coming

Pull Request - State: closed - Opened by awohns over 4 years ago - 5 comments

#65 - Add support in backwards step for dangling nodes

Issue - State: closed - Opened by hyanwong over 4 years ago - 1 comment
Labels: enhancement

#52 - Areas not covered by code

Issue - State: open - Opened by hyanwong over 4 years ago
Labels: good first issue

#40 - Viterbi Algorithm

Issue - State: closed - Opened by awohns over 4 years ago - 4 comments
Labels: enhancement

#38 - Dating dangling nodes

Issue - State: open - Opened by awohns almost 5 years ago - 2 comments
Labels: enhancement

#30 - Take find_node_tip_weights out of prior_maker

Pull Request - State: closed - Opened by hyanwong almost 5 years ago - 1 comment

#29 - added approximate prior and efficient mutation mapping

Pull Request - State: closed - Opened by awohns almost 5 years ago - 1 comment

#7 - Extend the top end of the adaptive time grid to include large values

Issue - State: open - Opened by hyanwong almost 5 years ago - 1 comment
Labels: invalid