Pathway Ranker
Version 1

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Run on usegalaxy.eu

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.

SEEK ID: https://workflowhub.eu/workflows/25?version=1

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
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