Workflow

A workflow is a set of components assembled in some specific order to

  1. Measure and estimate some numerical parameters of the biological system or
  2. Visualization

for addressing a biological question. Workflows can be a combination of components from the same or different software packages using several scripts and manual steps.

Neuron Tracing Vaa3D (MST)

Workflow
Description

3D Neuron Tracing using Dockerized version of Vaa3D Minimum Spanning Tree (MST).

has topic
Bioimage informatics
has function
Filament tracing
Neuron image analysis
need a thumbnail

Neuron Tracing 3D (Rivuletpy)

Workflow
Description

Rivuletpy dockerised workflow for BIAFLOWS.

has topic
Machine learning
has function
Filament tracing
Neuron image analysis
need a thumbnail

Neuron Tracing Vaa3D (App2)

Workflow
Description

Vaa3d All-Path-Pruning 2.0 (APP2) dockerised workflow for BIAFLOWS.

has topic
Bioimage informatics
has function
Filament tracing
Neuron image analysis
need a thumbnail

Object Tracking (MU-Lux-CZ)

Workflow
Description

Cell tracking using MU-Lux-CZ algorithm. Dockerized Workflow for BIAFLOWS implemented by Martin Maska (Masaryk University).

has topic
Machine learning
has function
Object tracking
need a thumbnail

Object Tracking (Octave)

Workflow
Description

Nuclei tracking in 2D time-lapse with Octave tracker (adapted from Matlab LOBSTER version).

has topic
Bioimage informatics
Live sample imaging
has function
Object tracking
need a thumbnail
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