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Data released on March 23, 2017

Software for "MetaLIMS, A Simple Open-Source Laboratory Information Management System for Small Metagenomic Labs"

Gaultier, N, P; Heinle, C, E; Lauro, F, M; Miller, D; Purbojati, R, W (2017): Software for "MetaLIMS, A Simple Open-Source Laboratory Information Management System for Small Metagenomic Labs" GigaScience Database. RIS BibTeX Text

As the cost of sequencing continues to fall, smaller groups increasingly initiate and manage larger sequencing projects and take on the complexity of data storage for high volumes of samples. This has created a need for low-cost laboratory information management systems (LIMS) that contain flexible fields to accommodate the unique nature of individual labs. Many labs do not have a dedicated IT position, so LIMS must also be easy to setup and maintain with minimal technical proficiency.
MetaLIMS is a free and open source web-based application available via GitHub. The focus of MetaLIMS is to store sample metadata prior to sequencing and analysis pipelines. Initially designed for environmental metagenomics labs, in addition to storing generic sample collection information and DNA/RNA processing information the user can also add fields specific to the users lab. MetaLIMS can also produce a basic sequencing submission form compatible with the proprietary Clarity LIMS system used by some sequencing facilities. To help ease the technical burden associated with web-deployment, MetaLIMS options the use of commercial web-hosting combined with MetaLIMS bash scripts for ease of set-up.
MetaLIMS overcomes key challenges common in LIMS by giving labs access to a low-cost and open source tool that also has the flexibility to meet individual lab needs and an option for easy deployment. By making the web application open source and hosting it on GitHub, we hope to encourage the community to build upon MetaLIMS, making it more robust and tailored to the needs of more researchers.

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Read the peer-reviewed publication(s):

Heinle, C. E., Gaultier, N. P. E., Miller, D., Purbojati, R. W., & Lauro, F. M. (2017). MetaLIMS, a simple open-source laboratory information management system for small metagenomic labs. GigaScience, 6(6), 1–6. doi:10.1093/gigascience/gix025

Additional information:


LIMS GitHub open source web application sample management javascript php mysql html 



  • Funding body - Singapore Ministry of Education
  • Award ID - MOE2013-T3-1-013

Files: (FTP site) Table Settings


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File NameSample IDData TypeFile FormatSizeRelease Date 
ReadmeTEXT0.23 KB2017-03-20
GitHub archivearchive50.4 MB2017-03-20
Displaying 1-2 of 2 File(s).



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