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📣 Announcements
Aug 10 Apologies for the website downtime last week. I messed up the migration process between institutions. If you would like to be alerted to future issues, please follow project updates on Bluesky
▶ Quick start
1Open a pathway tab (Central Carbon, Amino Acids, or Lipid & Sterol).
2Click a reaction arrow to set custom lower/upper bounds.
3Press S or click ▶ Solve to run FBA across all maps.
Full documentation →
Preset Maps
Custom Maps
Custom Maps
No custom maps yet.
Click + to create one.
μ — h⁻¹
Connecting…
Δ diff mode
Recent Runs
No history yet.
Press Solve to record a run.
Recent Data
No datasets uploaded yet.

✦ New Map

Map name
⌕
Metabolite filter
◈
Showing reactions & metabolites involving this metabolite
Compartment filter
⬡
0 groups 0 reactions 0 metabolites selected
Groups / Subsystems
Individual Reactions
Individual Metabolites

⌀ Gene Knockouts

⌕ …
No knockouts added yet.
Search above to find a gene, reaction, or EC number
to knock out.
Gene Abundance 0 reactions mapped
⬡ Gene Abundance
0max
Measured zero
No data for reaction

Active Constraints

⌕ …
— rxn
Lower bound
Upper bound
No constraints yet.
Click any reaction arrow
in a map to add one.
Model:
Yeast-GEM ⇄ swap
Reactions:—
Metabolites:—
Solve time:—
⬤ API

Load Model

Upload an SBML (.xml) model file. The backend will regenerate
all pathway maps and re-solve. This may take a minute.

⬡
Click to browse or drag & drop an .xml file here
SBML Level 2 or 3 · COBRApy-compatible
Uploading model…

⊕ Change Objective

Build a weighted linear objective function. Search for reactions and set their weights below.

⌕ …
Weight
Objective Terms 0 terms
No reactions added yet.
Search above to add a reaction to the objective.

⚙ Settings

Appearance
Colour Scheme
✎ Editing Custom — click any swatch to edit

Load Experimental Data

Upload a CSV file with two columns: gene name/ID and abundance value.
The file will be saved and available in the experiment menu.
📂
Drag & drop a CSV file here
or click to browse
Accepted format: .csv
Uploading…

✎ Edit Model

Please choose a new model name if you would like to create a duplicate model to edit. Leaving this box blank will mean editing your current model.

✎ Edit Model

⬡ Add / Edit Metabolites 0 pending
ID
Name
Compartment
Formula
Charge
⇌ Add / Edit Reactions 0 pending
ID
Name
Lower Bound
Upper Bound
Reaction Equation — negative stoichiometry = substrate
No metabolites added yet.
◈ Add / Edit Pathways 0 pending
Name
Associated Reactions
No reactions added yet.