2D spots counting using KNIME

Type
Workflow
Author
Juergen Reymann
Requires
KNIME Image Processing and Analysis
Execution Platform
Linux
Mac
Windows
Programming Language
KNIME Workflow
Supported image dimension
2D
Interaction Level
Automated
License/Openness
Free and open source
Description

These two KNIME workflow solutions are similar: first one detects nuclei and spots inside the nuclei without taking care of surrounding regions, i.e. mitochondria. The second one provides the full solution including spots in mitochondria.

see section 2.4 for KNIME workflow. Section 2.3 is also available, using Fiji. 

Sample image: hela-cells.tif (674k x 3)

has function
Spot detection
has biological terms
mitochondria
lysosome
Entry Curator
czhang
Post date
12/09/2014 - 12:35
Last modified
05/14/2018 - 23:26
Download Page
download workflow
Documentation Link
Training material