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Pull requests: YosefLab/Cassiopeia

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Pull requests list

Replace CCPhylo with Cython DNJ/UPGMA; add functional solver API
#286 opened May 28, 2026 by colganwi Collaborator Loading…
4 tasks
Refactor simulator to functional API over TreeData (v3.0.0)
#284 opened May 21, 2026 by colganwi Collaborator Loading…
6 tasks
1
Expression Simulation
#280 opened Nov 14, 2025 by colganwi Collaborator Loading…
Bug fix: Use clustered lineage profile for indel color generation
#261 opened Jun 9, 2025 by tzeitim Loading…
Fix chained assignment warning in utilities.py for pandas 3.0 compatibility
#260 opened Jun 9, 2025 by tzeitim Loading…
Non recursive form_clusters
#259 opened Apr 28, 2025 by colganwi Collaborator Loading…
Update topology_test.py
#254 opened Jan 2, 2025 by mattjones315 Collaborator Loading…
Improved doublet detection in call_lineages enhancement New feature or request
#225 opened Sep 19, 2023 by colganwi Collaborator Loading…
@colganwi
CRISPR-Cas9 distance correction solver enhancement New feature or request
#211 opened Aug 11, 2023 by sprillo Collaborator Loading…
@sprillo
16
Generalizing 'collapse_mutationless_edges' and small fitchcount bugfix bug Something isn't working enhancement New feature or request
#181 opened May 25, 2022 by richardyz98 Collaborator Loading…
@richardyz98
1
added STDR wrap-around enhancement New feature or request
#94 opened May 13, 2021 by richardyz98 Collaborator Loading…
@richardyz98
1
[WIP] Branch length estimation enhancement New feature or request
#50 opened Dec 29, 2020 by sprillo Collaborator Loading…
@sprillo
68
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