scRNA-tools Edit

Citations: 11

z-index: 11

Basic information
Short name scRNA-tools
Full name
Description scRNA-tools collects a range of information on each scRNA-seq analysis tool and categorises them according to the analysis tasks they perorm.
Year founded 2018
Last update & version
Accessibility Accessible
Contact information

The contact information is provided to facilitate update of database information, and it is curated based on the contact details in the database or the related publications. To ensure effective contact with database constructors, we give priority to the contact details in the database.

University/Institution Murdoch Children’s Research Institute
Address Bioinformatics, Murdoch Children’s Research Institute, Melbourne, Victoria, Australia
Country/Region Australia
Contact name (PI/Team) AliciaOshlack
Contact email (PI/Helpdesk)
Data information
Data object
Data type
Database category
Major organism
  • Exploring the single-cell RNA-seq analysis landscape with the scRNA-tools database. [PMID: 29939984]
    Zappia L, Phipson B, Oshlack A.

    As single-cell RNA-sequencing (scRNA-seq) datasets have become more widespread the number of tools designed to analyse these data has dramatically increased. Navigating the vast sea of tools now available is becoming increasingly challenging for researchers. In order to better facilitate selection of appropriate analysis tools we have created the scRNA-tools database ( to catalogue and curate analysis tools as they become available. Our database collects a range of information on each scRNA-seq analysis tool and categorises them according to the analysis tasks they perform. Exploration of this database gives insights into the areas of rapid development of analysis methods for scRNA-seq data. We see that many tools perform tasks specific to scRNA-seq analysis, particularly clustering and ordering of cells. We also find that the scRNA-seq community embraces an open-source and open-science approach, with most tools available under open-source licenses and preprints being extensively used as a means to describe methods. The scRNA-tools database provides a valuable resource for researchers embarking on scRNA-seq analysis and records the growth of the field over time.

    PLoS Comput Biol 2018:14(6)

    11 Citations (from Europe PMC, 2019-07-13)


  • Ranking in all databases: No. 637
  • Ranking in category/categories:
    • Expression: No. 102
    • Metadata: No. 45
The box plots depict Z-index distribution for all databases in Database Commons and for specific database category/categories. The red line indicates log2(Z-index) of scRNA-tools.

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Record metadata

  • Created on: 2019-05-10
    • ***ina@*** [2019-05-10]

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