Workflow constructed from Tutorial 'Introduction to Image Analysis using Galaxy'
6.0

Workflow Type: Galaxy

Associated Tutorial

This workflows is part of the tutorial Introduction to Image Analysis using Galaxy, available in the GTN

Features

Thanks to...

Workflow Author(s): Till Korten, Leonid Kostrykin

Tutorial Author(s): Thomas Wollmann, Saskia Hiltemann, Leonid Kostrykin

Tutorial Contributor(s): Helena Rasche, Saskia Hiltemann, Björn Grüning, Leonid Kostrykin, Thomas Wollmann

Funder(s): ELIXIR Europe

gtn star logo followed by the word workflows

Inputs

ID Name Description Type
input_image #main/input_image The image to be segmented
  • File

Steps

ID Name Description
1 Show image info toolshed.g2.bx.psu.edu/repos/imgteam/image_info/ip_imageinfo/5.7.1+galaxy1
2 Filter 2-D image toolshed.g2.bx.psu.edu/repos/imgteam/2d_simple_filter/ip_filter_standard/1.12.0+galaxy1
3 Perform histogram equalization toolshed.g2.bx.psu.edu/repos/imgteam/2d_histogram_equalization/ip_histogram_equalization/0.18.1+galaxy0
4 Threshold image toolshed.g2.bx.psu.edu/repos/imgteam/2d_auto_threshold/ip_threshold/0.18.1+galaxy3
5 Convert binary image to label map toolshed.g2.bx.psu.edu/repos/imgteam/binary2labelimage/ip_binary_to_labelimage/0.5+galaxy0
6 Overlay images toolshed.g2.bx.psu.edu/repos/imgteam/overlay_images/ip_overlay_images/0.0.4+galaxy4
7 Count objects in label map toolshed.g2.bx.psu.edu/repos/imgteam/count_objects/ip_count_objects/0.0.5-2

Outputs

ID Name Description Type
out_png #main/out_png n/a
  • File
output #main/output n/a
  • File

Version History

6.0 (earliest) Created 2nd Jun 2025 at 10:57 by GTN Bot

Added/updated 4 files


Open master d7cea9b
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Views: 38   Downloads: 3   Runs: 0

Created: 2nd Jun 2025 at 10:57

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