Treffer: easySCF: a tool for enhancing interoperability between R and Python for efficient single-cell data analysis.
Title:
easySCF: a tool for enhancing interoperability between R and Python for efficient single-cell data analysis.
Authors:
Zhang H; School of Biomedical Engineering, Shanghai Jiao Tong University, Shanghai, 200240, China., Zhang W; School of Mathematical Sciences, Shanghai Jiao Tong University, Shanghai, 200240, China., Zhao S; Collaborative Innovation Centre of Regenerative Medicine and Medical BioResource Development and Application Co-constructed by the Province and Ministry, Guangxi Medical University, Nanning, 530021, China., Xu G; Collaborative Innovation Centre of Regenerative Medicine and Medical BioResource Development and Application Co-constructed by the Province and Ministry, Guangxi Medical University, Nanning, 530021, China., Shen Y; Jiangsu Key Laboratory of Marine Pharmaceutical Compound Screening, College of Pharmacy, Jiangsu Ocean University, Lianyungang 222005, China., Jiang F; Shanghai Research and Development Center, UxBioInfo, Shanghai, 201100, China., Qin A; Shanghai Key Laboratory of Orthopaedic Implants, Department of Orthopaedics, Shanghai Ninth People's Hospital, Shanghai Jiao Tong University School of Medicine, Shanghai, 200125, China., Cui L; Collaborative Innovation Centre of Regenerative Medicine and Medical BioResource Development and Application Co-constructed by the Province and Ministry, Guangxi Medical University, Nanning, 530021, China.; Shanghai Key Laboratory of Orthopaedic Implants, Department of Orthopaedics, Shanghai Ninth People's Hospital, Shanghai Jiao Tong University School of Medicine, Shanghai, 200125, China.
Source:
Bioinformatics (Oxford, England) [Bioinformatics] 2024 Nov 28; Vol. 40 (12).
Publication Type:
Journal Article; Research Support, Non-U.S. Gov't
Language:
English
Journal Info:
Publisher: Oxford University Press Country of Publication: England NLM ID: 9808944 Publication Model: Print Cited Medium: Internet ISSN: 1367-4811 (Electronic) Linking ISSN: 13674803 NLM ISO Abbreviation: Bioinformatics Subsets: MEDLINE
Imprint Name(s):
Original Publication: Oxford : Oxford University Press, c1998-
MeSH Terms:
References:
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Nature. 2022 Jul;607(7919):540-547. (PMID: 35794482)
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Grant Information:
82372430 National Natural Science Foundation of China
Entry Date(s):
Date Created: 20241125 Date Completed: 20241211 Latest Revision: 20250219
Update Code:
20250220
PubMed Central ID:
PMC11634540
DOI:
10.1093/bioinformatics/btae710
PMID:
39585309
Database:
MEDLINE
Weitere Informationen
Summary: This study introduces easySCF, a tool designed to enhance the interoperability of single-cell data between the two major bioinformatics platforms, R and Python. By supporting seamless data exchange, easySCF improves the efficiency and accuracy of single-cell data analysis.
Availability and Implementation: easySCF utilizes a unified data format (.h5 format) to facilitate data transfer between R and Python platforms. The tool has been evaluated for data processing speed, memory efficiency, and disk usage, as well as its capability to handle large-scale single-cell datasets. easySCF is available as an open-source package, with implementation details and documentation accessible at https://github.com/xleizi/easySCF.
(© The Author(s) 2024. Published by Oxford University Press.)