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:
-
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
Metadata
Release files for seuratToAdata 0.0.6
For a detailed explanation of source distributions (sdists) and built distributions (wheels), please see the package formats documentation.
Source distribution (sdist)
| File | Size | Uploaded | |
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| seuratToAdata-0.0.6.tar.gz | 3.8 kB | Details |
Built distribution (wheel)
| File | Interpreter | ABI | Platform | Reset |
|---|---|---|---|---|
| seuratToAdata-0.0.6-py3-none-any.whl | Python 3 | none | any | Details |
Total release size: 8.2 kB
Release files / seuratToAdata-0.0.6.tar.gz
| Download URL | seuratToAdata-0.0.6.tar.gz |
|---|---|
| Size | 3.8 kB |
| Tags | Source |
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Release files / seuratToAdata-0.0.6-py3-none-any.whl
| Download URL | seuratToAdata-0.0.6-py3-none-any.whl |
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| Size | 4.4 kB |
| Tags | Python 3 |
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twine/3.3.0 pkginfo/1.7.0 requests/2.25.0 setuptools/51.0.0.post20201207 requests-toolbelt/0.9.1 tqdm/4.54.1 CPython/3.7.4
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