mauriceling/advancesyntoolkit

Toolkit for Modelling and Simulation of Gene Expressions and Metabolism

Language: Python - Size: 157 MB - Last synced at: 1 day ago - Pushed at: 1 day ago - Stars: 12 - Forks: 44

earmingol/scCellFie

scCellFie infers metabolic activities from single-cell and spatial transcriptomics and offers a variety of downstream analyses.

Language: Python - Size: 58.8 MB - Last synced at: 1 day ago - Pushed at: 1 day ago - Stars: 9 - Forks: 0

jotech/gapseq

Informed prediction and analysis of bacterial metabolic pathways and genome-scale networks

Language: R - Size: 411 MB - Last synced at: 4 days ago - Pushed at: 4 days ago - Stars: 180 - Forks: 37

iliapopov17/KEGGaNOG

🤝 Tool for generating KEGG pathways completeness heatmaps from eggNOG-mapper annotations

Language: Python - Size: 15.7 MB - Last synced at: 10 days ago - Pushed at: 10 days ago - Stars: 5 - Forks: 0

cnapy-org/efmtool_link

Language: Python - Size: 5.3 MB - Last synced at: 28 days ago - Pushed at: 2 months ago - Stars: 0 - Forks: 0

iquasere/KEGGCharter

A tool for representing genomic potential and transcriptomic expression into KEGG pathways

Language: Python - Size: 519 MB - Last synced at: about 1 month ago - Pushed at: 10 months ago - Stars: 54 - Forks: 7

MetExplore/dexom

Diversity-based enumeration of optimal context-specific metabolic networks

Language: MATLAB - Size: 2.32 MB - Last synced at: about 1 month ago - Pushed at: almost 4 years ago - Stars: 6 - Forks: 1

MetaNetX/MNXref

MNXref: Reconciliation of metabolites and biochemical reactions for metabolic networks

Size: 1000 Bytes - Last synced at: 3 months ago - Pushed at: 3 months ago - Stars: 1 - Forks: 0

IBCHgenomic/metabolic-json

a metabolic json parser and streamlit for BIGG database

Language: Python - Size: 301 KB - Last synced at: 2 months ago - Pushed at: 9 months ago - Stars: 0 - Forks: 0

freddy-oulia/Metabolic_fluxes_DNN

Code and data repository for Modeling Metabolic Fluxes Using Deep Learning Based on Enzyme Variations

Language: Python - Size: 7.96 MB - Last synced at: 5 months ago - Pushed at: 5 months ago - Stars: 0 - Forks: 0

y1zhou/metabolike

Identifying reprogrammed metabolic routes given omics data.

Language: Python - Size: 1.67 MB - Last synced at: about 2 months ago - Pushed at: over 2 years ago - Stars: 6 - Forks: 0

bebop/ark

Go REST API to replace Genbank, Uniprot, Rhea, and CHEMBL

Language: Go - Size: 17 MB - Last synced at: 6 days ago - Pushed at: over 1 year ago - Stars: 23 - Forks: 6

PathVisio/FindYourInteraction

PathVisio plugin to find relevant metabolic reactions from Rhea

Language: Java - Size: 13.7 KB - Last synced at: about 1 year ago - Pushed at: about 7 years ago - Stars: 1 - Forks: 1

brsynth/straindesign

Library to perform metabolic engineering tasks

Language: Python - Size: 10.4 MB - Last synced at: about 1 year ago - Pushed at: about 1 year ago - Stars: 4 - Forks: 0

tubanlee/MM

Infer metabolic directions from moment differences of mass-weighted intensity distributions

Language: R - Size: 4.17 MB - Last synced at: over 1 year ago - Pushed at: over 1 year ago - Stars: 186 - Forks: 14

mathieubolteau/M1_PDP_Project

Web application of metabolics pathway visualisation, for the Gencovery business (https://gencovery.com/), created during the PDP project during the M1 of the Master of Bioinformatics, in Bordeaux.

Language: JavaScript - Size: 982 KB - Last synced at: over 1 year ago - Pushed at: almost 5 years ago - Stars: 0 - Forks: 0

munozalexander/MetNet

A basic network of human metabolism, including key enzymes, intermediates, and hormonal influences

Language: Swift - Size: 362 KB - Last synced at: almost 2 years ago - Pushed at: almost 7 years ago - Stars: 1 - Forks: 0

bioasp/meneco

:m: Metabolic network completion

Language: Jupyter Notebook - Size: 6.78 MB - Last synced at: 30 days ago - Pushed at: about 2 years ago - Stars: 9 - Forks: 9

ToniWestbrook/paladin-plugins

Pipeline plugins for PALADIN, providing HPC support, abundance (taxonomy, go terms), customized reports, etc

Language: Python - Size: 77.1 KB - Last synced at: about 1 year ago - Pushed at: about 1 year ago - Stars: 3 - Forks: 1

arbasher/prepBioCyc

prepBioCyc: Preprocess BioCyc files

Language: Python - Size: 343 KB - Last synced at: almost 2 years ago - Pushed at: about 3 years ago - Stars: 0 - Forks: 0

hallamlab/leADS

leADS: improved metabolic pathway inference based on active dataset subsampling

Language: Python - Size: 5.45 MB - Last synced at: about 1 year ago - Pushed at: over 3 years ago - Stars: 0 - Forks: 1

hallamlab/chap

CHAP: Modeling Metabolic Pathways as Groups (with Augmentation)

Language: Python - Size: 354 KB - Last synced at: about 1 year ago - Pushed at: over 3 years ago - Stars: 0 - Forks: 1

hallamlab/reMap

reMap: relabeling metabolic pathway data with groups to improve prediction outcomes

Language: Python - Size: 1.26 MB - Last synced at: about 1 year ago - Pushed at: over 3 years ago - Stars: 0 - Forks: 0

hallamlab/triUMPF

Metabolic pathway inference using non-negative matrix factorization with community detection

Language: Python - Size: 2.42 MB - Last synced at: about 1 year ago - Pushed at: over 3 years ago - Stars: 0 - Forks: 1