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Nanostring-Biostats / FastReseg

FastReseg for detection and correction of cell segmentation error based on spatial profile of transcripts.
https://nanostring-biostats.github.io/FastReseg/
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functions should take plain arguments, not configs #2

Closed patrickjdanaher closed 2 years ago

patrickjdanaher commented 2 years ago

We probably don't need the config objects like we used in the TAP pipeline; it'd be simpler if our functions just took simple arguments.

For advanced settings, we could use a "config" or "control" argument used in many functions. For an example, see mclust::Mclust or umap::umap.

lidanwu commented 2 years ago

current function is taking direct arguments. The only config it takes are for the Delaunay network at the actual re-segmentation step.