Performance Test
Stereo-seq Test Data
sample1_bin100
17,884
29
sample1_bin50
70,761
38
sample1_bin20
439,383
39
sample1_cellbin
134,703
39
sample2_bin100
23,061
11
sample2_bin50
91,106
11
sample2_bin20
5,643,322
11
Runtime and Memory Usage
Squidpy: Both runtime and memory usage increase with the number of cells. For different bin sizes, the runtime is typically less than 1 hour. However, memory usage increases significantly for bin20.
CRAWDAD: Runtime and memory usage also increase with the number of cells. For different bin sizes, memory usage generally remains below 10 GB, but runtime increases significantly for bin20.
CRAWDAD: The runtime is highly sensitive to the value of
--crawdad_perms. Increasing this parameter improves the accuracy of p-values but also substantially increases computation time. The default value is 10.
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