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BioPerl
Analyzed 2 days ago
Bioperl is a large, object-oriented toolkit of interacting perl modules useful for building bioinformatics solutions in Perl. The collection of modules in the bioperl-live repository contains the core functionality. Additional packages for creating graphical interfaces (bioperl-gui), setting up
Licenses:
artistic
BioJava
Analyzed 3 days ago
BioJava is an open-source project dedicated to providing a Java framework for processing biological data. It include objects for manipulating biological sequences, file parsers, DAS client and server support, access to BioSQL and Ensembl databases, tools for making sequence analysis GUIs and
Jmol
J
Analyzed about 2 months ago
Jmol is a Java molecular viewer for three-dimensional chemical structures. Features include reading a variety of file types and output from quantum chemistry programs, and animation of multi-frame files and computed normal modes from quantum programs.
Galaxy Bioinformatics Platform
Analyzed almost 2 years ago
Galaxy allows you to do analyses you cannot do anywhere else without the need to install or download anything. You can analyze multiple alignments, compare genomic annotations, profile metagenomic samples and much much more... We provide a public Galaxy instance at https://usegalaxy.org where you
Biopython
Analyzed about 16 hours ago
Biopython is a set of freely available tools for biological computation written in Python by an international team of developers.
It is a distributed collaborative effort to develop Python libraries and applications which address the needs of current and future work in bioinformatics. The source
Licenses:
Biopython...
SeqAn
Analyzed 2 days ago
Seqan is a C++ template library of efficient data structures and algorithms for sequence analysis.
Licenses:
BSD-3-Clause
SHOGUN
Analyzed about 16 hours ago
The SHOGUN machine learning toolbox's focus is on large scale kernel methods and especially on Support Vector Machines (SVM). It comes with a generic interface for SVMs, features several SVM and kernel implementations, includes LinAdd optimizations and also Multiple Kernel Learning algorithms.
Licenses:
gpl3_or_l...
mdanalysis
Analyzed 2 days ago
MDAnalysis is an object-oriented python toolkit to analyze molecular dynamics trajectories generated by CHARMM, NAMD, LAMMPS, or Gromacs.
It allows one to read molecular dynamics trajectories and access the atomic coordinates through numpy arrays. This provides a flexible and relatively fast
XNAT
Analyzed almost 4 years ago
XNAT is an open-source imaging informatics software platform dedicated to helping you perform imaging-based research. XNAT’s core functions manage importing, archiving, processing and securely distributing imaging and related study data. But its extended uses continue to evolve.
Licenses:
bsd_2clau...
The Chemistry Development Kit
T
Analyzed 2 days ago
The Chemistry Development Kit (CDK) is a library of Java classes for chemo-, bioinformatics, computational chemistry, and chemometrics. It provides important algorithms like substructure search, SMILES, Gasteiger charges, QSAR descriptor calculation, 3D structure generation, 2D layout and rendering, many IO formats, atom typing, and more.