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Benchmarking principal component analysis for large-scale single-cell RNA-sequencing.

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第一作者： Koki,Tsuyuzaki

第一单位： Laboratory for Bioinformatics Research, RIKEN Center for Biosystems Dynamics Research, Wako, Saitama, 351-0198, Japan. koki.tsuyuzaki@gmail.com.;Japan Science and Technology Agency, PRESTO, 5-3, Yonbancho, Chiyoda-ku, Tokyo, 102-8666, Japan. koki.tsuyuzaki@gmail.com.

作者： Koki,Tsuyuzaki ^[1] ; Hiroyuki,Sato ^[2] ; Kenta,Sato ^[3] ; Itoshi,Nikaido ^[4]

作者单位： Laboratory for Bioinformatics Research, RIKEN Center for Biosystems Dynamics Research, Wako, Saitama, 351-0198, Japan. koki.tsuyuzaki@gmail.com.;Japan Science and Technology Agency, PRESTO, 5-3, Yonbancho, Chiyoda-ku, Tokyo, 102-8666, Japan. koki.tsuyuzaki@gmail.com. ^[1] Department of Applied Mathematics and Physics, Graduate School of Informatics, Kyoto University, Yoshida-honmachi, Sakyo-ku, Kyoto, 606-8501, Japan. ^[2] Laboratory for Bioinformatics Research, RIKEN Center for Biosystems Dynamics Research, Wako, Saitama, 351-0198, Japan.;Department of Biotechnology, Graduate School of Agricultural and Life Sciences, The University of Tokyo, Bunkyo-ku, Tokyo, 113-8657, Japan. ^[3] Laboratory for Bioinformatics Research, RIKEN Center for Biosystems Dynamics Research, Wako, Saitama, 351-0198, Japan. itoshi.nikaido@riken.jp.;Bioinformatics Course, Master's/Doctoral Program in Life Science Innovation (T-LSI), School of Integrative and Global Majors (SIGMA), University of Tsukuba, 1-1-1, Tennodai, Tsukuba, Ibaraki, 305-8577, Japan. itoshi.nikaido@riken.jp. ^[4]

关键词 Cellular heterogeneity Dimension reduction Julia Online/incremental algorithm Out-of-core Principal component analysis Python R Randomized algorithm Single-cell RNA-seq Sparse data format

医学主题词算法(Algorithms);主成分分析(Principal Component Analysis);单细胞分析(Single-Cell Analysis)

DOI 10.1186/s13059-019-1900-3

PMID 31955711

发布时间 2025-01-06

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