search

StatBiomed / SpatialDM

Spatial direct messaging detected by bivariate Moran
https://spatialdm.readthedocs.io
Apache License 2.0
24 stars 5 forks source link

Memory limit during sdm.spatialdm_local #32

Open Jiayi-Zheng opened 2 months ago

Jiayi-Zheng commented 2 months ago

Hello, I'm using stereo-seq with lower bin size, and so I've got a few ten thousands of pixels, when I try to run spatialdm_local it tells me my memory is not enough. I want to ask if I can reduce the n_permutation to save memory? What would be an ok level of n_perm if I don't set it to 1000? How would that affect my result? Also, if there any other ways to get around this memory limit...?

Thank you!

huangyh09 commented 2 months ago

Thanks Joy for raising the issue. @jackywangtj66 is working on more tutorials with the z-score and API functions for both the spatial weight matrix and Moran's R. Please keep tuned.