- š Hi, Iām @arianccbasile
- š Iām interested in Metagenomics and Flux balance analysis
- š± Iām currently learning
- š« How to reach me: [email protected]
arianccbasile Goto Github PK
Type: User
Type: User
This repo collects the list of learning online resources related to microbiome computational science and tools.
Repository provided as supplementary for the paper "Revealing metabolic mechanism of interactions in the anaerobic digestion microbiome by flux balance"
Config files for my GitHub profile.
CarveMe: genome-scale metabolic model reconstruction
Repository for scripts related to reproducing the results of an individual publication
The COnstraint-Based Reconstruction and Analysis Toolbox. Documentation:
Code depository for papers
Make Complex Heatmaps
COPASI is a software application for simulation and analysis of biochemical networks and their dynamics.
Collection of scripts that include programmatic io and control of Cytoscape
Designing microbial communities
:eye: Python library to plot DNA sequence features (e.g. from Genbank files)
Uncover organisms' metabolic blueprints
Genome scale metabolic models in SBML format
Python script to upload bins and MAGs to ENA (European Nucleotide Archive)
Stoichiometric representation of GPR associations (transformation method and gene-based simulation methods)
GPRuler, an open-source computational framework to automate the reconstruction process of Gene-Protein-Reaction (GPR) rules within metabolic networks of a given organism based on the corresponding list of genes involved in catalysis of each metabolic reaction, and genes-to-reaction associations.
IsoSim: stoichiometric, kinetic and isotopic modeling of metabolic systems
This repo contains inputs, outputs, and step-by-step details regarding how genome scale metabolic models were reconstructed for strains used in Melanie's screen.
NEMETEX (NEtwork for METabolic EXchanges) is designed for giving graphical visualizations of metabolite exchanges within complex communities. Flux Balance Analysis (FBA) results are not easy to interpret, and certainly not intuitive. NEMETEX aims to provide a simple and useful visualization for managing high-throughput data from metagenomic and FBA analyses. NEMETEX directly work on SMETANA output files.
Practical exercises of flux balance analysis for beginners
Personal data visualization side projects.
WoLFPSort v0.2 source code as original server no longer available
A declarative, efficient, and flexible JavaScript library for building user interfaces.
š Vue.js is a progressive, incrementally-adoptable JavaScript framework for building UI on the web.
TypeScript is a superset of JavaScript that compiles to clean JavaScript output.
An Open Source Machine Learning Framework for Everyone
The Web framework for perfectionists with deadlines.
A PHP framework for web artisans
Bring data to life with SVG, Canvas and HTML. ššš
JavaScript (JS) is a lightweight interpreted programming language with first-class functions.
Some thing interesting about web. New door for the world.
A server is a program made to process requests and deliver data to clients.
Machine learning is a way of modeling and interpreting data that allows a piece of software to respond intelligently.
Some thing interesting about visualization, use data art
Some thing interesting about game, make everyone happy.
We are working to build community through open source technology. NB: members must have two-factor auth.
Open source projects and samples from Microsoft.
Google ā¤ļø Open Source for everyone.
Alibaba Open Source for everyone
Data-Driven Documents codes.
China tencent open source team.