Genetic Design (BASIC Assembly)
1.0

Workflow Type: Galaxy

Design plasmids encoding predicted pathways by using the BASIC assembly method.

Associated Tutorial

This workflows is part of the tutorial Designing plasmids encoding predicted pathways by using the BASIC assembly method, available in the GTN

Thanks to...

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

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Inputs

ID Name Description Type
DNA-Bot settings #main/DNA-Bot settings n/a
  • File
Enzyme taxon IDs #main/Enzyme taxon IDs Comma separated values
  • string
Host taxon ID #main/Host taxon ID n/a
  • int
Linkers and user parts #main/Linkers and user parts n/a
  • File
Pathway (SBML) #main/Pathway (SBML) n/a
  • File

Steps

ID Name Description
5 Selenzyme Performs enzyme selection from a reaction query. toolshed.g2.bx.psu.edu/repos/tduigou/selenzy/selenzy-wrapper/0.2.0
6 BasicDesign Extracts enzyme IDs from rpSBML files. toolshed.g2.bx.psu.edu/repos/tduigou/rpbasicdesign/rpbasicdesign/0.3.4
7 DNA-Bot DNA assembly using BASIC on OpenTrons. toolshed.g2.bx.psu.edu/repos/tduigou/dnabot/dnabot/3.1.0

Outputs

ID Name Description Type
Uniprot IDs #main/Uniprot IDs n/a
  • File
_anonymous_output_1 #main/_anonymous_output_1 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


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Created: 2nd Jun 2025 at 10:59

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