jclachance

BOFdat

Generate biomass objective function stoichiometric coefficients for genome-scale models from experimental data

iJL208

The metabolic model for Mesoplasma florum and the code to make it work

biopython

Official git repository for Biopython (converted from CVS)

bigg_models_data

The flat files for the BiGG Models website

BiGMeC

BiGMeC - Biosynthetic Gene cluster Metabolic pathway Constructor

build_model

Example model reconstruction and analysis scripts

COGfinder

Python package to find the Cluster of Orthologous Groups (COG) categories for every gene in a fasta files(s)

cookiecutter-memote

A cookiecuttter template for memote model repositories

escher

Build, view, share, and embed pathway maps.

etfl

ETFL: A formulation for flux balance models accounting for expression, thermodynamics, and resource allocation constraints

MinimalGenome

MinGenome: An in silico top-down approach for the synthesis of minimized genomes.

oxidizeme

OxidizeME model and notebooks

pgap

NCBI Prokaryotic Genome Annotation Pipeline

pytfa

A Python 3 implementation of Thermodynamics-based Flux Analysis

solvemepy

solveME public repository

y-ome

A workflow to define the Y-ome for E. coli K-12 MG1655

yeast-GEM

The consensus GEM for Saccharomyces cerevisiae

yetfl