awesome-glyco

(Still under development ... 🏗️)

Community-curated list of software packages and data resources for Glycoscience Contributions welcome.

This collection is inspired by awesome-single-cell.

Recommended label lists my favorites -- they only reflect my personal reference and are not rigorously evaluated. Contact me if you would like other software to be added!

Contents

• awesome-glyco
  • Contents
  • Software packages
  • Web portals and databases
  • Interactive visualization and analysis

Software packages

• Glycowork - [python] - Glycowork is a Python package specifically designed to simplify glycan sequence processing and analysis.
• CandyCrunch - [python] - CandyCrunch is a package for predicting glycan structure from LC-MS/MS data. It contains the CandyCrunch model, along with the rest of the inference pipeline and downstream spectrum processing tools.
• GlycoSHIELD - [python] - GlycoSHIELD is a simple MD pipeline to generate realistic glycoprotein models.
• GlyCONFORMER - [python] - Code to generate N-glycan conformer strings based on torsion angle values.

Web portals and databases

• GlyCosmos - [webportal] - A web portal aiming to integrate glycosciences with the life sciences. It consists of Standards, Repositories, and Data Resources, providing information about genes, proteins, lipids, pathways, and diseases. Recommended
• GlyGen - [webportal] -A data integration and dissemination project for carbohydrate and glycoconjugate-related data. GlyGen retrieves information from multiple international data sources and integrates and harmonizes this data.Recommended
• Glyco3D - [webportal] - Glyco3D is a portal of databases covering the three-dimensional features of monosaccharides, disaccharides, oligosaccharides (Conformations and NMR spectra), polysaccharides, glycosyltransferases, lectins, monoclonal antibodies against carbohydrates, and glycosaminoglycan binding proteins.
• GlycoCoO - [database] - Glycoconjugate Ontology (GlycoCoO) is a standard ontology for glycoconjugate data (glycoprotein/glycolipid structures, publication information, biological source information, experimental data).
• GlycoRDF - [database] - GlycoRDF is a standard representation for storing Glycomics data (glycan structures, publication information, biological source information, experimental data) in RDF.

Interactive visualization and analysis

• GlyConnect Compozitor - [webserver] -Visualises glycan compositions as a network of relations of shared monosaccharides Outputs interactive graphs summarising information searched in the GlyConnect database.