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GNAT NER

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  Analyzed 11 days ago

GNAT is a library and web service capable of performing gene entity NER and normalization of biomedical articles. Mentions of genes and proteins in the articles are linked to to Entrez Gene identifiers. GNAT is available both for local download (suitable for large-scale processing) and as a web service (suitable for more limited proces... [More]

28.3K lines of code

1 current contributors

4 months since last commit

2 users on Open Hub

Very Low Activity
0
 
Licenses: No declared licenses

relax (molecular dynamics analysis)

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  Analyzed 3 months ago

relax is a program designed for the study of molecular dynamics of organic molecules, proteins, RNA, DNA, sugars, and other biomolecules through the analysis of experimental NMR data. It supports exponential curve fitting for the calculation of the R1 and R2 relaxation rates, calculation of the NOE, reduced spectral density mapping, th... [More]

2.04M lines of code

2 current contributors

3 months since last commit

1 users on Open Hub

Activity Not Available
0
 

Python Macromolecular Library (mmLib)

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  Analyzed 2 months ago

The Python Macromolecular Library (mmLib) is a software toolkit and library of routines for the analysis and manipulation of macromolecular structural models, implemented in the Python programming language. It is accessed via a layered, object-oriented application programming interface, and provides a range of useful software component... [More]

54.7K lines of code

0 current contributors

Almost 3 years since last commit

1 users on Open Hub

Activity Not Available
4.0
   

Force Field X

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  Analyzed 3 months ago

Force Field X (FFX) is a group of open source (GPL v. 3 with Linking Exception), platform independent modules for molecular biophysics. Key methods include: 1) Atomic Multipole Optimized Energetics for Biomolecular Applications (AMOEBA) force fields 2) Particle-mesh Ewald (PME) electrostatics with support for space group symmetry 3)... [More]

281K lines of code

11 current contributors

3 months since last commit

1 users on Open Hub

Activity Not Available
5.0
 

sire

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  Analyzed over 1 year ago

Molecular modelling package in early developmental stage

3.57M lines of code

7 current contributors

Over 1 year since last commit

1 users on Open Hub

Activity Not Available
0
 

mmdb

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  Analyzed 2 months ago

MMDB is a macromolecular coordinate library, written by Eugene Krissinel. It supports reading and writing two file formats, PDB and mmCIF, and provides high-level tools for working with coordinate files: orthogonal-fractional coordinate transforms, generation of symmetry mates, editing the molecular structure and some others. Tar... [More]

70.9K lines of code

0 current contributors

Over 1 year since last commit

1 users on Open Hub

Activity Not Available
0
 

ProDy

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  Analyzed 4 days ago

ProDy is a free and open-source Python package for analysis and modeling of protein structural dynamics. It allows for efficient analysis of large datasets and is suitable for development or prototyping of structure-based analysis and modeling software.

38.3K lines of code

0 current contributors

Over 1 year since last commit

1 users on Open Hub

Very Low Activity
5.0
 

PPI Benchmark

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  Analyzed almost 2 years ago

A comprehensive benchmark of kernel methods to extract protein-protein interactions from literature.

721K lines of code

2 current contributors

Over 2 years since last commit

1 users on Open Hub

Activity Not Available
0
 
Licenses: No declared licenses

EMMA - Markov Model Algorithms

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  Analyzed 5 months ago

Markov models, often called Markov state models (MSMs) or kinetic transition networks, are concise and easy-to-analyze discrete models of continuous stochastic processes. They have been extensively used in the analysis of molecular dynamics (MD). The EMMA software provides a number of command line tools that provide the basics of cons... [More]

52.8K lines of code

4 current contributors

6 months since last commit

1 users on Open Hub

Activity Not Available
0
 
Licenses: No declared licenses

iligner

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  Analyzed 3 days ago

This is a project to develop the next generation of sequence alignment editor for the Mac OS X platform. It is being developed in the Cocoa framework to produce a fast and intuitive tool for manual and semi-automated sequence alignment.

9.43K lines of code

0 current contributors

Over 6 years since last commit

0 users on Open Hub

Inactive
0