Do we have scanpy version of NICHS

[HelloWorldLTY]

Hi, thanks for your great work. Considering the recent bugs in Seurat v5 as well as its complicated structure to load spatial data, do you have any plans to develop a python-based version with scanpy? Thanks.

[HelloWorldLTY]

Furthermore, I met an error when running NICHS:

Error in graph.adjacency.dense(adjmatrix, mode = mode, weighted = weighted, : long vectors not supported yet: ../../src/include/Rinlinedfuns.h:537

This happens when running:

NICHES_output <- RunNICHES(object = brain,
                           LR.database = "fantom5",
                           species = "human",
                           assay = "RNA",
                           position.x = 'x',
                           position.y = 'y',
                           k = 4, 
                           cell_types = "label",
                           min.cells.per.ident = 0,
                           min.cells.per.gene = NULL,
                           meta.data.to.map = c('orig.ident','label'),
                           CellToCell = F,CellToSystem = F,SystemToCell = F,
                           CellToCellSpatial = F,CellToNeighborhood = F,NeighborhoodToCell = T)