sc-permut 0.1.1

Deep learning annotation of cell-types with permutation inforced autoencoder

sc_permut

Deep learning annotation of cell-types with permutation inforced autoencoder

Summary

Parse Scanpy, Seurat and CellRanger objects

Fast crawl through your folder and detect Seurat (.rds), Scanpy (.h5ad) or cellranger (.h5) atlas files.

Usage

The one liner way to run checkatlas is the following:

$ cd your_search_folder/
$ python -m sc_permut .
#or
$ checkatlas .

Or run it inside your python workflow.

from sc_permut import sc_permut
sc_permut.run(path, atlas_list, multithread, n_cpus)

Development

Read the CONTRIBUTING.md file.