Metadata-Version: 2.1
Name: scprel
Version: 1.1.5
Summary: Single-cell data preprocessing for multiple samples.
Home-page: https://pypi.org/project/scprel/
Author: GPuzanov (Grigory Puzanov)
Author-email: <grigorypuzanov@gmail.com>
License: UNKNOWN
Description: ## Scprel - Single-Cell Data Preprocessing in Python
        
        ### Import scprel as:
        
            import scprel
        
        This package allows to perform basic preprocessing steps for single-cell analysis of multiple samples. It includes scrublets detection, quality control, normalization, leiden clustering and infercnv calculations. This package is the result of integrating some of the scanpy, decoupler, infercnvpy and anndata functions. It is designed to facilitate workflow when analyzing multiple samples.
        
        ### Example of usage:
        
            from scprel import scrun
            
        	scrun(names = ['sample1', 'sample2'], path = '/content/drive/MyDrive/MyDirectory/')
        
        * *names - list of sample names in your directory (.h5 format);* 
        * *path - path to the directory with samples*
        
        The result of this function is the adata file with concatenated samples, filtered by 'mt' and 'ribo' genes, with annotated gene locations and annotated tumor cells based on cnv score. The resulting file will be saved in your default home directory and is ready for batch correction and further analysis.
Keywords: python,single-cell,scRNA-seq,single-cell quality control,single-cell data preparation,single-cell multiple samples,samples concatenation
Platform: UNKNOWN
Classifier: Development Status :: 1 - Planning
Classifier: Intended Audience :: Science/Research
Classifier: Programming Language :: Python :: 2
Classifier: Programming Language :: Python :: 2.7
Classifier: Programming Language :: Python :: 3
Classifier: Programming Language :: Python :: 3.6
Classifier: Programming Language :: Python :: 3.7
Classifier: Programming Language :: Python :: 3.8
Classifier: Programming Language :: Python :: 3.9
Classifier: Operating System :: Unix
Classifier: Operating System :: MacOS :: MacOS X
Classifier: Operating System :: Microsoft :: Windows
Description-Content-Type: text/markdown
