Workflow Type: Galaxy
Stable

The workflow runs the RetroSynthesis algorithm to generate a collection of heterologous pathways in a host organism of choice, converts them to SBML files, performs analysis on the pathways to then rank the theoretical best performing ones.

Steps

ID Name Description
0 Target InChI
1 RetroRules retrorules
2 GEM SBML
3 Maximal Pathway Length
4 Top Ranking Pathways
5 Make Source makeSource
6 Sink from SBML rpExtractSink
7 RetroPath2.0 retropath2
8 RP2paths rp2paths
9 Pathways to SBML rpReader
10 Complete Reactions rpCofactors
11 Thermodynamics rpThermo
12 FBA rpFBA
13 Rank Pathways rpGlobalScore
14 Pathway Visualiser rpVisualiser
15 Report rpReport

Outputs

ID Name Description Type
output output n/a
sourceFile sourceFile n/a
output output n/a
scope_csv scope_csv n/a
rp2paths_pathways rp2paths_pathways n/a
rp2paths_compounds rp2paths_compounds n/a
output output n/a
output output n/a
output output n/a
output output n/a
output output n/a
output output n/a
output output n/a

Version History

Version 1 (earliest) Created 29th May 2020 at 12:19 by Melchior du Lac

Added/updated 1 files


Open master 44ecc1c
help Creators and Submitter
Creator
Submitter
License
Activity

Views: 1460   Downloads: 53

Created: 29th May 2020 at 12:19

Last used: 2nd Dec 2022 at 06:21

help Attributions

None

Total size: 14.3 KB
Powered by
(v.1.12.3)
Copyright © 2008 - 2022 The University of Manchester and HITS gGmbH

By continuing to use this site you agree to the use of cookies