tskit-dev msprime issues

tskit-dev / msprime

Simulate genealogical trees and genomic sequence data using population genetic models

GNU General Public License v3.0

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Upgrade actions and use numpy2

#2287 benjeffery opened 1 day ago
2
Support numpy >= 2, drop Python 3.8

#2286 jeromekelleher opened 1 week ago
2
MacOS ARM wheels packages broken

#2285 jeromekelleher opened 1 month ago
2
stat verification gc smck

#2284 GertjanBisschop closed 1 month ago
2
update installation docs

#2283 GertjanBisschop closed 1 month ago
1
Smc(k) gene conversion

#2282 GertjanBisschop closed 1 month ago
3
merge

#2281 agushin101 closed 1 month ago
0
Enable gene conversion for SMC_K model

#2280 GertjanBisschop closed 1 month ago
1
How to very quickly record marginal changes in tree height along a sequence?

#2278 trevorcousins closed 2 months ago
3
Fix OSX tests

#2277 benjeffery closed 1 month ago
7
add tree fixation using newick string and TreeSequence object

#2276 not-a-feature opened 2 months ago
5
Fix codecov

#2275 benjeffery closed 2 months ago
1
add record_provenance argument to sim_mutations; closes #2272

#2273 petrelharp opened 3 months ago
1
no `record_provenance` argument to sim_mutations

#2272 petrelharp opened 3 months ago
0
Clarify the meaning of the mutation rate when a matrix is used

#2271 hyanwong closed 22 hours ago
3
Hulls

#2270 GertjanBisschop closed 2 months ago
2
AFS folding (polarised=False)

#2269 sunyatin opened 3 months ago
6
Disallow unstable beta coalescents

#2267 JereKoskela closed 4 months ago
5
multiallelic sites within the VCF

#2266 LuisGFdez opened 4 months ago
1
Verification kdeplot

#2265 daikitag closed 4 months ago
1
Docs versioning no longer working

#2264 jeromekelleher opened 4 months ago
2
Update docs copyright year

#2263 jeromekelleher closed 1 month ago
0
Update installation docs for minimum python version

#2262 jeromekelleher closed 1 month ago
0
Document no pip install on Windows

#2261 daikitag closed 1 month ago
1
update changelog

#2258 GertjanBisschop closed 4 months ago
1
Numerical stability of beta model

#2257 JereKoskela closed 4 months ago
6
Discrepancy between expected and observed coalescence time in beta coalescent for large values of alpha

#2256 Sendrowski closed 4 months ago
23
Demography.from_demes(): ancestral population sizes and migration rates missing

#2255 simonharnqvist opened 4 months ago
6
issue with replicates using "num_replicates"

#2249 yzliu01 closed 6 months ago
4
global stop condition

#2248 GertjanBisschop opened 6 months ago
1
Syncing sweeps implementation in algorithms.py

#2247 GertjanBisschop opened 6 months ago
1
Update pypi release package

#2246 benjeffery closed 6 months ago
0
Update changelog date

#2245 benjeffery closed 6 months ago
0
Remove research notice

#2244 jeromekelleher closed 6 months ago
1
Save information about sweep in SweepGenicSelection model

#2243 jeromekelleher opened 6 months ago
6
Illogical Lineage Counts in algorithms.py

#2242 agushin101 opened 6 months ago
7
Additional stats tests microsats

#2241 GertjanBisschop closed 6 months ago
1
Update demography tests to stdpopsim 0.2

#2240 GertjanBisschop opened 6 months ago
1
pin stdpopsim

#2239 GertjanBisschop closed 6 months ago
2
avoid negative probs, closes #2237

#2238 petrelharp closed 6 months ago
1
TPM microsats model transition matrix error

#2237 GertjanBisschop closed 6 months ago
6
verification.py updates

#2236 GertjanBisschop closed 6 months ago
1
Computing likelihood for decapitated ARGs.

#2235 GertjanBisschop opened 6 months ago
0
make verfication.py compatible with latest pyslim

#2234 GertjanBisschop closed 6 months ago
1
Tests fail with stdpopsim 0.2.0

#2233 benjeffery opened 6 months ago
7
modify checks arg lik

#2232 GertjanBisschop closed 6 months ago
8
remove ll_representation argument

#2231 GertjanBisschop opened 6 months ago
2
fix msmssweeps verification

#2230 GertjanBisschop closed 6 months ago
1
AttributeErrors in verification.py: MsmsSweeps

#2229 GertjanBisschop closed 6 months ago
5
remove tests/data folder

#2228 GertjanBisschop closed 6 months ago
3