Emre Özdemir's repositories
croissance
Tool for estimating growth rates from microbial growth curves
cobrapy_to_binder
only a dummy test project
component-contribution
Standard reaction Gibbs energy estimation for biochemical reactions
cookiecutter-data-science-simplified
A logical, reasonably standardized, but flexible project structure for doing and sharing data science work.
data-describe
data⎰describe: Pythonic EDA Accelerator for Data Science
escher
Build, view, share, and embed pathway maps.
escher-maps
Extracted metabolic maps (OLD)
etfl
ETFL: A formulation for flux balance models accounting for expression, thermodynamics, and resource allocation constraints
geckopy
Enzyme-constrained genome-scale models in python
goatools
Python scripts to find enrichment of GO terms
iLoop_RNAseq_pipeline
RNA sequencing data analysis pipeline for iLoop
iModulonMiner
Workflow to download, process, and explore microbial RNA-seq data from NCBI SRA
impute-me
impute-me taken down repo
ostir
Software for predicting translation initiation rates in bacteria
pymodulon
Python package for analyzing and visualizing iModulons
pytfa
A Python 3 implementation of Thermodynamics-based Flux Analysis
reference_sequences
Internal reference sequence bank
RetroPathRL
Reinforcement Learning based bioretrosynthesis tool
samplesheet
Illumina SampleSheet Processing