Ecosyste.ms: Issues
An open API service for providing issue and pull request metadata for open source projects.
GitHub / tskit-dev/msprime issues and pull requests
#2321 - Initial steps for internal pedigree samples
Pull Request -
State: closed - Opened by jeromekelleher 28 days ago
- 5 comments
#2319 - sim_ancestry with initial state can produce invalid ts when mutations exist above the roots
Issue -
State: open - Opened by ShyamieG about 1 month ago
- 4 comments
#2318 - Add an example of calculating the map positions
Pull Request -
State: closed - Opened by hyanwong about 1 month ago
- 1 comment
#2317 - removed scipy.stats.chisquared; closes #2316
Pull Request -
State: closed - Opened by petrelharp about 2 months ago
- 2 comments
#2316 - chi square tests for mutation verification broken
Issue -
State: closed - Opened by jeromekelleher about 2 months ago
- 1 comment
Labels: bug
#2315 - Pin to specific SLiM version
Pull Request -
State: closed - Opened by jeromekelleher about 2 months ago
- 1 comment
#2314 - Make older msprime tests build againts numpy<2
Pull Request -
State: closed - Opened by jeromekelleher about 2 months ago
- 1 comment
#2313 - V1.3.3 hotfix
Pull Request -
State: closed - Opened by jeromekelleher about 2 months ago
- 2 comments
#2312 - Version 1.3.2 contains untested smc_k code
Issue -
State: open - Opened by jeromekelleher about 2 months ago
Labels: bug
#2311 - Update changelog for bugfix release
Pull Request -
State: closed - Opened by jeromekelleher about 2 months ago
- 1 comment
#2310 - Multiple merger polyploid scaling
Pull Request -
State: closed - Opened by jeromekelleher about 2 months ago
- 3 comments
#2309 - Multiple merger polyploid scaling
Pull Request -
State: closed - Opened by JereKoskela about 2 months ago
- 2 comments
#2308 - Malloc Q rather than from stack in multi-merger
Pull Request -
State: closed - Opened by jeromekelleher about 2 months ago
- 1 comment
#2307 - Segfault with `BetaCoalescent` and ploidy greater than diploid
Issue -
State: closed - Opened by nspope about 2 months ago
- 9 comments
Labels: bug
#2306 - DOC: pyslim link
Pull Request -
State: closed - Opened by daikitag 2 months ago
- 1 comment
Labels: documentation
#2305 - Broken pyslim link in documentation
Issue -
State: closed - Opened by daikitag 2 months ago
- 1 comment
Labels: documentation
#2304 - add kastore to development.txt
Pull Request -
State: closed - Opened by petrelharp 2 months ago
- 2 comments
#2303 - Factor out distributed SMC logic
Pull Request -
State: open - Opened by jeromekelleher 2 months ago
- 1 comment
#2302 - No module named kastore when following Development guide
Issue -
State: closed - Opened by PandaGab 2 months ago
- 1 comment
#2300 - Insert merged lineage
Pull Request -
State: closed - Opened by jeromekelleher 2 months ago
- 2 comments
#2298 - Add lineage tail
Pull Request -
State: closed - Opened by jeromekelleher 2 months ago
- 2 comments
#2297 - Move segment attrs to lineage
Pull Request -
State: closed - Opened by jeromekelleher 2 months ago
- 2 comments
#2296 - Simpler lineage struct
Pull Request -
State: closed - Opened by jeromekelleher 2 months ago
- 3 comments
#2295 - Add lineage struct
Pull Request -
State: closed - Opened by jeromekelleher 3 months ago
- 2 comments
#2294 - Add Lineage/lineage_t concept
Issue -
State: open - Opened by jeromekelleher 3 months ago
- 1 comment
#2293 - Multiple model simulation is not accurately capturing demography model
Issue -
State: closed - Opened by daikitag 3 months ago
- 6 comments
Labels: bug
#2291 - Fix doc refs and CircleCI
Pull Request -
State: closed - Opened by benjeffery 3 months ago
- 1 comment
#2290 - Changelog
Pull Request -
State: closed - Opened by benjeffery 3 months ago
- 2 comments
#2289 - Coalescent rate trajectory ignores a population's activation time
Issue -
State: open - Opened by apragsdale 3 months ago
- 2 comments
#2288 - Python 3.12 wheels
Issue -
State: closed - Opened by fcooper8472 3 months ago
- 3 comments
#2287 - Upgrade actions and use numpy2
Pull Request -
State: closed - Opened by benjeffery 3 months ago
- 8 comments
#2286 - Support numpy >= 2, drop Python 3.8
Pull Request -
State: closed - Opened by jeromekelleher 3 months ago
- 2 comments
#2285 - MacOS ARM wheels packages broken
Issue -
State: closed - Opened by jeromekelleher 4 months ago
- 3 comments
Labels: bug
#2284 - stat verification gc smck
Pull Request -
State: closed - Opened by GertjanBisschop 5 months ago
- 2 comments
#2283 - update installation docs
Pull Request -
State: closed - Opened by GertjanBisschop 5 months ago
- 1 comment
#2282 - Smc(k) gene conversion
Pull Request -
State: closed - Opened by GertjanBisschop 5 months ago
- 3 comments
#2281 - merge
Pull Request -
State: closed - Opened by agushin101 5 months ago
#2280 - Enable gene conversion for SMC_K model
Issue -
State: closed - Opened by GertjanBisschop 5 months ago
- 1 comment
#2278 - How to very quickly record marginal changes in tree height along a sequence?
Issue -
State: closed - Opened by trevorcousins 5 months ago
- 3 comments
#2277 - Fix OSX tests
Pull Request -
State: closed - Opened by benjeffery 5 months ago
- 7 comments
#2276 - add tree fixation using newick string and TreeSequence object
Pull Request -
State: open - Opened by not-a-feature 6 months ago
- 5 comments
#2275 - Fix codecov
Pull Request -
State: closed - Opened by benjeffery 6 months ago
- 1 comment
#2273 - add record_provenance argument to sim_mutations; closes #2272
Pull Request -
State: closed - Opened by petrelharp 6 months ago
- 1 comment
#2272 - no `record_provenance` argument to sim_mutations
Issue -
State: closed - Opened by petrelharp 6 months ago
#2271 - Clarify the meaning of the mutation rate when a matrix is used
Pull Request -
State: closed - Opened by hyanwong 6 months ago
- 3 comments
#2270 - Hulls
Pull Request -
State: closed - Opened by GertjanBisschop 7 months ago
- 2 comments
#2269 - AFS folding (polarised=False)
Issue -
State: open - Opened by sunyatin 7 months ago
- 6 comments
#2267 - Disallow unstable beta coalescents
Pull Request -
State: closed - Opened by JereKoskela 8 months ago
- 5 comments
#2266 - multiallelic sites within the VCF
Issue -
State: open - Opened by LuisGFdez 8 months ago
- 1 comment
#2265 - Verification kdeplot
Pull Request -
State: closed - Opened by daikitag 8 months ago
- 1 comment
#2264 - Docs versioning no longer working
Issue -
State: open - Opened by jeromekelleher 8 months ago
- 2 comments
Labels: documentation
#2263 - Update docs copyright year
Issue -
State: closed - Opened by jeromekelleher 8 months ago
Labels: documentation
#2262 - Update installation docs for minimum python version
Issue -
State: closed - Opened by jeromekelleher 8 months ago
Labels: documentation
#2261 - Document no pip install on Windows
Issue -
State: closed - Opened by daikitag 8 months ago
- 1 comment
Labels: documentation
#2258 - update changelog
Pull Request -
State: closed - Opened by GertjanBisschop 8 months ago
- 1 comment
#2257 - Numerical stability of beta model
Pull Request -
State: closed - Opened by JereKoskela 8 months ago
- 6 comments
#2256 - Discrepancy between expected and observed coalescence time in beta coalescent for large values of alpha
Issue -
State: closed - Opened by Sendrowski 8 months ago
- 23 comments
#2255 - Demography.from_demes(): ancestral population sizes and migration rates missing
Issue -
State: open - Opened by simonharnqvist 8 months ago
- 6 comments
#2249 - issue with replicates using "num_replicates"
Issue -
State: closed - Opened by yzliu01 9 months ago
- 4 comments
#2248 - global stop condition
Pull Request -
State: open - Opened by GertjanBisschop 10 months ago
- 1 comment
#2247 - Syncing sweeps implementation in algorithms.py
Pull Request -
State: open - Opened by GertjanBisschop 10 months ago
- 1 comment
#2246 - Update pypi release package
Pull Request -
State: closed - Opened by benjeffery 10 months ago
#2245 - Update changelog date
Pull Request -
State: closed - Opened by benjeffery 10 months ago
#2244 - Remove research notice
Pull Request -
State: closed - Opened by jeromekelleher 10 months ago
- 1 comment
#2243 - Save information about sweep in SweepGenicSelection model
Issue -
State: open - Opened by jeromekelleher 10 months ago
- 6 comments
Labels: enhancement
#2242 - Illogical Lineage Counts in algorithms.py
Issue -
State: open - Opened by agushin101 10 months ago
- 7 comments
#2241 - Additional stats tests microsats
Pull Request -
State: closed - Opened by GertjanBisschop 10 months ago
- 1 comment
#2240 - Update demography tests to stdpopsim 0.2
Issue -
State: open - Opened by GertjanBisschop 10 months ago
- 1 comment
Labels: Infrastructure and tools
#2239 - pin stdpopsim
Pull Request -
State: closed - Opened by GertjanBisschop 10 months ago
- 2 comments
#2238 - avoid negative probs, closes #2237
Pull Request -
State: closed - Opened by petrelharp 10 months ago
- 1 comment
#2237 - TPM microsats model transition matrix error
Issue -
State: closed - Opened by GertjanBisschop 10 months ago
- 6 comments
#2236 - verification.py updates
Pull Request -
State: closed - Opened by GertjanBisschop 10 months ago
- 1 comment
#2235 - Computing likelihood for decapitated ARGs.
Issue -
State: open - Opened by GertjanBisschop 10 months ago
Labels: enhancement
#2234 - make verfication.py compatible with latest pyslim
Pull Request -
State: closed - Opened by GertjanBisschop 10 months ago
- 1 comment
#2233 - Tests fail with stdpopsim 0.2.0
Issue -
State: open - Opened by benjeffery 10 months ago
- 7 comments
Labels: Infrastructure and tools
#2232 - modify checks arg lik
Pull Request -
State: closed - Opened by GertjanBisschop 10 months ago
- 8 comments
#2231 - remove ll_representation argument
Pull Request -
State: open - Opened by GertjanBisschop 10 months ago
- 2 comments
#2230 - fix msmssweeps verification
Pull Request -
State: closed - Opened by GertjanBisschop 10 months ago
- 1 comment
#2229 - AttributeErrors in verification.py: MsmsSweeps
Issue -
State: closed - Opened by GertjanBisschop 10 months ago
- 5 comments
#2228 - remove tests/data folder
Pull Request -
State: closed - Opened by GertjanBisschop 10 months ago
- 3 comments
#2227 - update changelog
Pull Request -
State: closed - Opened by GertjanBisschop 10 months ago
- 1 comment
#2226 - 1.3.0 Release
Issue -
State: closed - Opened by jeromekelleher 10 months ago
- 2 comments
#2225 - dtwf/ped stats tests
Pull Request -
State: closed - Opened by GertjanBisschop 10 months ago
- 1 comment
#2224 - fix sorting bug pedigrees
Pull Request -
State: closed - Opened by GertjanBisschop 10 months ago
- 1 comment
#2223 - Island model - migration rate definition
Issue -
State: closed - Opened by JaneeshBansal 11 months ago
- 1 comment
#2222 - Update development.md
Pull Request -
State: closed - Opened by daikitag 11 months ago
- 1 comment
#2221 - CpG mutation models
Issue -
State: open - Opened by hyanwong 11 months ago
- 4 comments
#2220 - Update DOI msprime 1.0 paper CITATION.md
Pull Request -
State: closed - Opened by GertjanBisschop 11 months ago
- 1 comment
#2218 - No Sweep Model for Spatially Structured Populations
Issue -
State: open - Opened by YuanboSong 11 months ago
- 1 comment
#2217 - Inconsistencies between algorithm.c and algorithm.py
Issue -
State: open - Opened by YuanboSong 11 months ago
- 1 comment
#2216 - Fix docs build warning
Pull Request -
State: closed - Opened by benjeffery 11 months ago
- 1 comment
#2214 - Update pedigree doc
Pull Request -
State: closed - Opened by daikitag 11 months ago
- 4 comments
#2213 - Example to simulate multiple bottlenecks for a population over several time points
Issue -
State: closed - Opened by yzliu01 11 months ago
- 4 comments
#2212 - Clarify the population size is diploid (by default)
Pull Request -
State: closed - Opened by hyanwong 11 months ago
- 4 comments
#2211 - draw_pedigree documentation
Issue -
State: closed - Opened by daikitag 11 months ago
- 3 comments
#2210 - Documentation for replicate_index
Issue -
State: closed - Opened by daikitag 11 months ago
- 3 comments
#2208 - Update PyPI auth method
Pull Request -
State: closed - Opened by benjeffery 12 months ago
- 1 comment
#2207 - Update pre commit
Pull Request -
State: closed - Opened by benjeffery 12 months ago
- 3 comments
#2206 - Update deps, remove py37 and fix test warnings
Pull Request -
State: closed - Opened by benjeffery 12 months ago
- 1 comment
#2205 - Update docs build
Pull Request -
State: closed - Opened by benjeffery 12 months ago
- 1 comment