0.6.0 🌈

Changes

🚀 Features

Breaking changes

• Move information on numerical/non_numerical/encoded_non_numerical from .uns to .var (#630) @eroell

Make older AnnData objects compatible using

def move_type_info_from_uns_to_var(adata, copy=False):
    """
    Move type information from adata.uns to adata.var['ehrapy_column_type'].
    
    The latter is the current, updated flavor used by ehrapy.
    """
    if copy:
        adata = adata.copy()
        
    adata.var['ehrapy_column_type'] = 'unknown'

    if 'numerical_columns' in adata.uns.keys():
        for key in adata.uns['numerical_columns']:
            adata.var.loc[key, 'ehrapy_column_type'] = 'numeric'
    if 'non_numerical_columns' in adata.uns.keys():
        for key in adata.uns['non_numerical_columns']:
            adata.var.loc[key, 'ehrapy_column_type'] = 'non_numeric'
    if 'encoded_non_numerical_columns' in adata.uns.keys():
        for key in adata.uns['encoded_non_numerical_columns']:
            adata.var.loc[key, 'ehrapy_column_type'] = 'non_numeric_encoded'
            
    if copy:
        return adata

New features

• Medcat refresh (#623) @eroell
• Rank features groups obs (#622) @eroell
• Add FHIR tutorial and simplify code (#626) @Zethson
• Add input checks for imputers (#625) @Zethson
• Removed unused dependencies (#615) @Zethson
• Refactor encoding (#588) @Zethson

🐛 Bug Fixes

• Use fixtures for preprocessing tests (#577) @Zethson

🧰 Maintenance

• Refactoring (#627) @Zethson
• Add FHIR tutorial and simplify code (#626) @Zethson
• pre-commit (#587) @Zethson
• Small edits (#599) @eroell