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Cis-GS v1.2.0 - 37x faster Louvain clustering

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@Ayushmania2002 Ayushmania2002 released this 28 May 20:23
· 19 commits to main since this release
v1.2.0
0e9aee6

What's New

Performance

  • 37x faster Louvain community detection: replaced O(N^2) Python edge iteration with vectorised NumPy thresholding + igraph C-backend multilevel modularity optimisation
  • End-to-end co-expression pipeline: ~150 s to ~10 s for A. hypogaea (56,513 genes)

Dependencies

  • Added: igraph>=0.11 (C-backend graph library)
  • python-louvain retained as fallback if igraph is unavailable

Benchmark

  • Updated benchmark figures with new Louvain timings across 3 species
  • Colorblind-safe palette (Tol Muted + Wong) for all figures
Assets 3
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