spatialdata
Spatial omics data storage, processing, and Python profiling
All Skills in This Repository (3)
Pure Emerald Level Indicators
scversememray
Profile Python memory allocations and generate temporal flamegraph HTML reports.
scverseprofimp
Profile Python import times and generate an HTML waterfall report.
scversepyspy
Profile Python script CPU time with py-spy and output speedscope JSON.
Frequently Asked Questions
FAQPage SchemaHow to install spatialdata?▼
Run `npx skills add scverse/spatialdata --all -g -y` in your terminal to install all skills in this suite globally.
What is spatial omics data?▼
Spatial omics data captures molecular measurements like gene expression mapped to their physical locations in tissue samples. SpatialData provides a standard format to store, query, and analyze this data.
How to find memory leaks in Python scripts?▼
The memray skill runs your script under memory profiling and generates a temporal flamegraph in the browser, showing allocation patterns and leaks over time.
How to profile slow Python code?▼
The pyspy skill records CPU execution time and opens an interactive speedscope report, helping you pinpoint the slowest functions in your script.
Why is my Python import so slow?▼
The profimp skill measures import times and produces a waterfall report showing exactly which modules and sub-imports slow down your startup.
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