Single Cell LIMS – Ettema Lab

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Single Cell LIMS – Ettema Lab

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2014-3-lims-presentation

Presentation of LIMS for Ettema Lab

On Github inodb / 2014-3-lims-presentation

Single Cell LIMS

Ettema Lab

Ino de Bruijn / @inodb

Content

  • Why a LIMS?
  • Database design
  • Implementation
  • LIMS website
  • Jimmy's user case
  • Find a barcode

Why a LIMS?

  • Physical World:
    • Keep track of all the objects in your lab
    • Get more detailed information on a physical item
    • Keep track of protocols
    • See how objects in your lab are related

Why a LIMS?

  • Data world:
    • See where your data comes from
    • Run the same analysis on all or a subset of objects by querying the database
    • Create web visualizations/analyses on each object

Database design

Single Cell Pipeline

Database design

LIMS Entity-Relationship Model

Database design

Storage Entity-Relationship Model

Implementation

Web framework - Django (Python)

Database - PostgreSQL

Authorization - Lightweight Directory Access Protocol

LIMS Viewing area

Video

LIMS Admin area

Video

Jimmy's user case

  • Taiwan samples
    • Create containers
    • Store sample info
    • Track lab work
    • Sequencing

Jimmy's user case

Jimmy's user case - Create Containers

Video

Jimmy's user case - Import Samples

Video

Jimmy's user case - Lab and sequencing

Video

Find a barcode

Use Barcode reader to find an object.

Questions?

Presentation atbit.ly/inotalks
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