PMID- 28430964
OWN - NLM
STAT- MEDLINE
DCOM- 20180320
LR  - 20240326
IS  - 2047-217X (Electronic)
IS  - 2047-217X (Linking)
VI  - 6
IP  - 6
DP  - 2017 Jun 1
TI  - MetaLIMS, a simple open-source laboratory information management system for small 
      metagenomic labs.
PG  - 1-6
LID - 10.1093/gigascience/gix025 [doi]
AB  - 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 
      information technology 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 user's 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 setup. 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.
CI  - (c) The Authors 2017. Published by Oxford University Press.
FAU - Heinle, Cassie Elizabeth
AU  - Heinle CE
FAU - Gaultier, Nicolas Paul Eugene
AU  - Gaultier NPE
FAU - Miller, Dana
AU  - Miller D
FAU - Purbojati, Rikky Wenang
AU  - Purbojati RW
FAU - Lauro, Federico M
AU  - Lauro FM
LA  - eng
PT  - Journal Article
PT  - Research Support, Non-U.S. Gov't
PL  - United States
TA  - Gigascience
JT  - GigaScience
JID - 101596872
SB  - IM
MH  - *Database Management Systems
MH  - Internet
MH  - Laboratories
MH  - Management Information Systems
MH  - *Metagenomics
MH  - Software
MH  - User-Computer Interface
PMC - PMC5449644
OTO - NOTNLM
OT  - GitHub
OT  - HTML
OT  - JavaScript
OT  - LIMS
OT  - customizable
OT  - mysql
OT  - open-source
OT  - php
OT  - sample management
OT  - web application
EDAT- 2017/04/22 06:00
MHDA- 2018/03/21 06:00
PMCR- 2017/04/18
CRDT- 2017/04/22 06:00
PHST- 2017/02/13 00:00 [received]
PHST- 2017/03/26 00:00 [accepted]
PHST- 2017/04/22 06:00 [pubmed]
PHST- 2018/03/21 06:00 [medline]
PHST- 2017/04/22 06:00 [entrez]
PHST- 2017/04/18 00:00 [pmc-release]
AID - 3738244 [pii]
AID - gix025 [pii]
AID - 10.1093/gigascience/gix025 [doi]
PST - ppublish
SO  - Gigascience. 2017 Jun 1;6(6):1-6. doi: 10.1093/gigascience/gix025.