AnnData

Overview

AnnData (Annotated Data) is Python's standard for storing and manipulating annotated data matrices, particularly in single-cell genomics. Work with AnnData objects for data creation, manipulation, file I/O, concatenation, and memory-efficient workflows.

Core Capabilities

1. Creating and Structuring AnnData Objects

Create AnnData objects from various data sources and organize multi-dimensional annotations.

Basic creation:

import anndata as ad
import numpy as np
from scipy.sparse import csr_matrix