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Backport PR #3529 on branch 1.11.x (Speed up wilcoxon rank-sum test with numba) #3539

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Merged
merged 1 commit into from
Mar 28, 2025
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Backport PR #3529 on branch 1.11.x (Speed up wilcoxon rank-sum test with numba) #3539

merged 1 commit into from
Mar 28, 2025

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Backport PR #3529: Speed up wilcoxon rank-sum test with numba

@lumberbot-app lumberbot-app bot added this to the 1.11.1 milestone Mar 28, 2025
@flying-sheep flying-sheep enabled auto-merge (squash) March 28, 2025 15:29
@flying-sheep flying-sheep merged commit 3b4978d into scverse:1.11.x Mar 28, 2025
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scverse-benchmark bot commented Mar 28, 2025 •
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Benchmark changes

Change Before [0226a24] After [0ada8d8] Ratio Benchmark (Parameter)
+ 10.6±0.1ms 12.0±1ms 1.13 preprocessing_counts.FastSuite.time_calculate_qc_metrics('bmmc', 'counts-off-axis')
- 600±20μs 522±2μs 0.87 preprocessing_counts.FastSuite.time_normalize_total('pbmc68k_reduced', 'counts')
- 107±2ms 61.9±4ms 0.58 tools.time_rank_genes_groups

Comparison: https://github.com/scverse/scanpy/compare/0226a24320640b2307e09b1b9e45fe693f460340..0ada8d8c9c7ec992118631fd6d335014904a7542
Last changed: Fri, 28 Mar 2025 16:50:01 +0000

More details: https://github.com/scverse/scanpy/pull/3539/checks?check_run_id=39595590510

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@meeseeksmachine @flying-sheep @yxwucq