Difference between revisions of "Citizen Science/Open Colony Counter Project"

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m (Specifications)
Line 23: Line 23:
  
 
===Features===
 
===Features===
* General
+
* '''General:'''
** bacterial colonies or DAPI stained mammalian cells
+
** can detect and count microbial colonies
**  
+
** accepted plate format: 60-90mm plates or multi-well plate format
* Image processing-related
+
** desktop device for the wetlab bench
** Colony count in less than 3 seconds.
+
** requires a PC (windows, osx, or linux)
*  
+
** lab automation friendly design
* Open source design
+
** Open Source design
 +
* '''Available Measurements:'''
 +
** colony count
 +
** individual colony properties (size, roundness, position)
 +
** export in CSV format or local database
 +
** PDF/HTML report with overlaid image with detection results + colony statistics
 +
* '''Image processing:'''
 +
** one-step processing for the user
 +
** colony count in less than 3 seconds.
 +
** automatic background detection
 +
** utilizes LED illumination to optimize contrast between colonies and substrate.
 +
** possible manual colony count editing for improved count.
 +
** USB Webcam as an image acquisition device
 +
 
 +
==Technological stack under investigation:==
 
* Image acquisition device: USB Webcam-based
 
* Image acquisition device: USB Webcam-based
* Light sources: white LEDs
+
* Light source: white LEDs, 470nm LEDs for GFP-like detection
* Image processing engine: OpenCV library-based
+
* Image processing engine: OpenCV library
* Calibration Mode / Automatic Mode
 
* Colony Counting mode / Colony Picking mode (if interfaced with a robotic platform)
 
* Lab automation friendly design
 
 
 
===Optional Features===
 
 
 
 
 
===Requirements===
 

Revision as of 08:58, 1 August 2010

Open Colony Counter Project

Open-Colony-Counter-Project-Banner.jpg

Home        Documentation        Applications        Resources

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Driving forces:

  • to provide an open source colony counter system
  • to ease access to quantitative equipment in Life Sciences
  • to deliver a low-cost / easy to reproduce design

Team:

Synthetic Biology Foundations Prism

Specifications

Features

  • General:
    • can detect and count microbial colonies
    • accepted plate format: 60-90mm plates or multi-well plate format
    • desktop device for the wetlab bench
    • requires a PC (windows, osx, or linux)
    • lab automation friendly design
    • Open Source design
  • Available Measurements:
    • colony count
    • individual colony properties (size, roundness, position)
    • export in CSV format or local database
    • PDF/HTML report with overlaid image with detection results + colony statistics
  • Image processing:
    • one-step processing for the user
    • colony count in less than 3 seconds.
    • automatic background detection
    • utilizes LED illumination to optimize contrast between colonies and substrate.
    • possible manual colony count editing for improved count.
    • USB Webcam as an image acquisition device

Technological stack under investigation:

  • Image acquisition device: USB Webcam-based
  • Light source: white LEDs, 470nm LEDs for GFP-like detection
  • Image processing engine: OpenCV library