Medium Catalog

pipeGEM includes medium definitions in pipeGEM.data.medium and exposes medium utilities through pipeGEM.data.MediumData and the medium registry.

Built-in medium files include common recipes such as LB, M9, M63, MOPS, DMEM, DMEM high FFA, serum, BHI, SOC, TB, R2A, Hams, and CGXII.

Apply medium data

from pipeGEM.data import MediumData

medium = MediumData.from_file("medium.tsv")
model.add_medium_data("condition", medium)
model.apply_medium("condition")

Use medium constraints before flux analysis, model testing, or context-specific reconstruction when the biological condition requires a defined nutrient environment.