Metadata-Version: 2.1
Name: seuratToAdata
Version: 0.0.5
Summary: Convert seurat obj to Adata
Home-page: https://jingxinfu.github.io/seuratToAdata
Author: Jingxin Fu
Author-email: jingxinfu.tj@gmail.com
License: UNKNOWN
Keywords: Bioinformatics,Genomics,Computational Biologist
Platform: UNKNOWN
Classifier: Programming Language :: Python
Classifier: License :: OSI Approved :: GNU General Public License v3 or later (GPLv3+)
Classifier: Operating System :: Unix
Classifier: Operating System :: MacOS
Requires-Python: >=3.5
Description-Content-Type: text/markdown
Requires-Dist: scanpy

# Convert Seurat Obj (rds) to Scanpy obj (adata)

## Usage:
```
conda enve create -f env.yaml
conda activate seuratToAdata

usage: seuratToAdata [-h] -o OUTPUT [--RNA] rds

positional arguments:
  rds                   Use - for STDIN or path for seurat obj(*.rds file)

optional arguments:
  -h, --help            show this help message and exit
  -o OUTPUT, --output OUTPUT
                        Specify path to write the results (default: None)
  --RNA                 Whether is store in the RNA slot (default: False)
```

## Issues might arise:
1. UnicodeDecodeError: 'ascii' codec can't decode byte 0xcf in position 1: ordinal not in range(128).

    Solved by fixing the locale: https://stackoverflow.com/questions/51026315/how-to-solve-unicodedecodeerror-in-python-3-6/51027262#51027262


