SCANPY：大规模单细胞基因表达数据分析。
SCANPY: large-scale single-cell gene expression data analysis.
机构信息
Helmholtz Zentrum München - German Research Center for Environmental Health, Institute of Computational Biology, Munich, Neuherberg, Germany.
Department of Mathematics, Technische Universität München, Munich, Germany.
出版信息
Genome Biol. 2018 Feb 6;19(1):15. doi: 10.1186/s13059-017-1382-0.
SCANPY is a scalable toolkit for analyzing single-cell gene expression data. It includes methods for preprocessing, visualization, clustering, pseudotime and trajectory inference, differential expression testing, and simulation of gene regulatory networks. Its Python-based implementation efficiently deals with data sets of more than one million cells ( https://github.com/theislab/Scanpy ). Along with SCANPY, we present ANNDATA, a generic class for handling annotated data matrices ( https://github.com/theislab/anndata ).
SCANPY 是一个可扩展的单细胞基因表达数据分析工具包。它包含预处理、可视化、聚类、拟时和轨迹推断、差异表达测试以及基因调控网络模拟等方法。其基于 Python 的实现可以有效地处理超过一百万细胞的数据集（ https://github.com/theislab/Scanpy ）。我们还提出了 ANNDATA，这是一个用于处理注释数据矩阵的通用类（ https://github.com/theislab/anndata ）。
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