Pinned Repositories
alphafold
Open source code for AlphaFold.
assembly
Code to deal with biological assemblies
BinaryCIF
BinaryCIF is a data format for storing text based CIF files using a more efficient binary encoding.
biojava
BioJava is an open-source project dedicated to providing a Java framework for processing biological data.
biojava-tutorial
A tutorial for BioJava 3
biozernike
Protein structure descriptors and alignment based on 3D Zernike moments.
biozernike-logistic-regression
Biozernike domain classification test
click-logger
Minimal GUI program to log the coordinates of clicks on an image
cmview
CMView: protein contact map visualization and analysis
forester
forester is a collection of open source libraries of Java and Ruby software for phylogenomics and evolutionary biology research
josemduarte's Repositories
josemduarte/cmview
CMView: protein contact map visualization and analysis
josemduarte/assembly
Code to deal with biological assemblies
josemduarte/biojava-tutorial
A tutorial for BioJava 3
josemduarte/forester
forester is a collection of open source libraries of Java and Ruby software for phylogenomics and evolutionary biology research
josemduarte/alphafold
Open source code for AlphaFold.
josemduarte/BinaryCIF
BinaryCIF is a data format for storing text based CIF files using a more efficient binary encoding.
josemduarte/biojava
BioJava is an open-source project dedicated to providing a Java framework for processing biological data.
josemduarte/biozernike
Protein structure descriptors and alignment based on 3D Zernike moments.
josemduarte/biozernike-logistic-regression
Biozernike domain classification test
josemduarte/click-logger
Minimal GUI program to log the coordinates of clicks on an image
josemduarte/eppic
Evolutionary protein-protein interface classifier
josemduarte/gps-data-conversion
Code to convert csv GPS data to xml
josemduarte/graphql-java
GraphQL Java implementation
josemduarte/graphql-spqr
Java 8+ API for rapid development of GraphQL services
josemduarte/jgrapht
Master repository for the JGraphT project
josemduarte/mmseqs-web
josemduarte/mmseqs-web-backend
josemduarte/mmtf
A description of the mmtf file format
josemduarte/mmtf-java
The Java implementation of the MMTF format. Includes the APIs for the data, decoding and encoding libraries. Also includes a reference implementation of the data format.
josemduarte/mmtf-python
The python implementation of the MMTF API, decoder and encoder.
josemduarte/molstar
A comprehensive macromolecular library
josemduarte/openfold
Trainable, memory-efficient, and GPU-friendly PyTorch reproduction of AlphaFold 2
josemduarte/protein-structure-embedding
josemduarte/qs-align
:arrow_lower_right::arrow_upper_right::leftwards_arrow_with_hook: Scalable protein quaternary structure alignment algorithm
josemduarte/rcsb-saguaro-app
RCSB Saguaro 1D Feature Viewer Web App
josemduarte/rcsb-stats
Compute archive-wide statistics. Powered by RCSB Search API and BinaryCIF.
josemduarte/schemagen-graphql
GraphQL-Java add-on that adds support for Schema Generation & Execution for enterprise level applications.
josemduarte/symmetry
Detect, analyze, and visualize protein symmetry