scself

Name	scself JSON
Version	0.4.5 JSON
	download
home_page	https://github.com/GreshamLab/sc_self_supervised
Summary	Self Supervised Tools for Single Cell Data
upload_time	2024-08-20 16:42:42
maintainer	Chris Jackson
docs_url	None
author	Chris Jackson
requires_python	None
license	None
keywords
VCS
bugtrack_url
requirements	numpy scipy pandas scikit-learn anndata scanpy sparse_dot_mkl numba tqdm
Travis-CI	No Travis.
coveralls test coverage	No coveralls.

            # scself

[![PyPI version](https://badge.fury.io/py/scself.svg)](https://badge.fury.io/py/scself)

Self Supervised Tools for Single Cell Data

Molecular Cross-Validation for PCs [arXiv manuscript](https://www.biorxiv.org/content/10.1101/786269v1)

```
mcv(
    count_data,
    n=1,
    n_pcs=100,
    random_seed=800,
    p=0.5,
    metric='mse',
    standardization_method='log',
    metric_kwargs={},
    silent=False,
    verbose=None,
    zero_center=False
)
```

Noise2Self for kNN selection [arXiv manuscript](https://arxiv.org/abs/1901.11365)

```
def noise2self(
    count_data,
    neighbors=None,
    npcs=None,
    metric='euclidean',
    loss='mse',
    loss_kwargs={},
    return_errors=False,
    connectivity=False,
    standardization_method='log',
    pc_data=None,
    chunk_size=10000,
    verbose=None
)
```

Implemented as in [DEWÄKSS](https://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1008569)

            

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