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 | tar |
sourceFile | sourceFile | n/a | csv |
output | output | n/a | csv |
scope_csv | scope_csv | n/a | csv |
rp2paths_pathways | rp2paths_pathways | n/a | csv |
rp2paths_compounds | rp2paths_compounds | n/a | tsv |
output | output | n/a | tar |
output | output | n/a | tar |
output | output | n/a | tar |
output | output | n/a | tar |
output | output | n/a | tar |
output | output | n/a | html |
output | output | n/a | csv |

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Activity
Views: 438 Downloads: 28
Created: 29th May 2020 at 12:19
Last used: 18th Jan 2021 at 05:55

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