Workflow Type: Galaxy

Generating theoretical possible pathways for the production of Lycopene in E.Coli using Retrosynthesis tools

Associated Tutorial

This workflows is part of the tutorial Generating theoretical possible pathways for the production of Lycopene in E.Coli using Retrosynthesis tools, available in the GTN

Thanks to...

Tutorial Author(s): Guillaume Gricourt, Thomas Duigou, Kenza Bazi-Kabbaj, Joan Hérisson, Ioana Popescu, Jean-Loup Faulon

gtn star logo followed by the word workflows

Inputs

ID Name Description Type
Target to produce #main/Target to produce n/a
  • string

Steps

ID Name Description
1 Pick SBML Model toolshed.g2.bx.psu.edu/repos/tduigou/get_sbml_model/get_sbml_model/0.0.1
2 RRules Parser toolshed.g2.bx.psu.edu/repos/tduigou/rrparser/rrparser/2.4.6
3 Sink from SBML toolshed.g2.bx.psu.edu/repos/tduigou/rpextractsink/rpextractsink/5.12.1
4 RetroPath2.0 toolshed.g2.bx.psu.edu/repos/tduigou/retropath2/retropath2/2.3.0
5 RP2paths toolshed.g2.bx.psu.edu/repos/tduigou/rp2paths/rp2paths/1.5.0
6 Complete Reactions toolshed.g2.bx.psu.edu/repos/tduigou/rpcompletion/rpcompletion/5.12.2

Outputs

ID Name Description Type
Pick SBML Model - iML1515 #main/Pick SBML Model - iML1515 n/a
  • File
RRules Parser(retro, d=['2', '4', '6', '8', '10', '12', '14', '16']) #main/RRules Parser(retro, d=['2', '4', '6', '8', '10', '12', '14', '16']) n/a
  • File
_anonymous_output_2 #main/_anonymous_output_2 n/a
  • File
_anonymous_output_3 #main/_anonymous_output_3 n/a
  • File
_anonymous_output_4 #main/_anonymous_output_4 n/a
  • File
_anonymous_output_5 #main/_anonymous_output_5 n/a
  • File
_anonymous_output_6 #main/_anonymous_output_6 n/a
  • File

Version History

1.0 (earliest) Created 2nd Jun 2025 at 10:59 by GTN Bot

Added/updated 4 files


Open master 6327fb9
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Views: 43   Downloads: 5   Runs: 0

Created: 2nd Jun 2025 at 10:59

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