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theislab / destiny

R package for single cell and other data analysis using diffusion maps
https://theislab.github.io/destiny/
GNU General Public License v3.0
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Is there a method to import scanpy DPT result to R diffusionmap #12

Closed zacharylau10 closed 4 years ago

zacharylau10 commented 5 years ago

Hi, I noticed that destiny function DiffusionMap is slow when import large scale single cell rna seq data, however the scanpysc.tl.diffmap is speedup when treat the same data. so I wonder whether there is a way to transport the scanpy sc.tl.diffmap results to R as the same structure as DiffusionMap. Thank you~

flying-sheep commented 5 years ago

which dataset? DiffusionMap should be pretty fast.

I’ll see what I can do and if I can’t speed it up, I’ll think about importing, OK?

flying-sheep commented 4 years ago

There’s now quite some progress in https://github.com/theislab/anndata2ri and https://github.com/LuckyMD/Code_snippets/blob/master/Seurat_to_anndata.ipynb!