Gene Similarity
FastSemSim is specially designed as a handy Python-based efficient implementation of a couple of semantic similarity measures.
The main target of the project is to enable fast and easy calculation of similarity between proteins and genes using the Gene Ontology
Platforms: Windows
License: Freeware | Download (382): FastSemSim Download |
Similarity is a useful program that helps you to find and remove similar, duplicate musical files (MP3, WMA, OGG, ASF, WAV, FLAC, APE, WV) with the same or similar sound content, music tags (ID3,WMF,Vorbis). This is the best program where similarity of a sound part is checked, not just music tags...
Platforms: Windows
License: Freeware | Size: 796 KB | Download (237): Similarity Download |
GENE Graph Export Engine is an advanced XML exporter. GENE Graph Export Engine is a complex convertor/framework for multi-namespace XML transforming and exporting. It is able to convert various XML types including SVG, DocBook, MathML, XSL-FO, and their combinations into a wide area of output...
Platforms: *nix
License: Freeware | Size: 1.1 MB | Download (96): GENE Graph Export Engine Download |
WordNet::Similarity::Visual is a Perl extension for providing visualization tools for WordNet::Similarity. SYNOPSIS Basic Usage Example use WordNet::Similarity::Visual; $gui = WordNet::Similarity::Visual->new; $gui->initialize; This package provides a graphical extension for...
Platforms: *nix
License: Freeware | Size: 19.46 KB | Download (113): WordNet::Similarity::Visual Download |
WordNet::Similarity::PathFinder is a Perl module to implement path finding methods (by node counting) for WordNet::Similarity measures of semantic relatedness. SYNOPSIS use WordNet::QueryData; my $wn = WordNet::QueryData->new; use WordNet::Similarity::PathFinder; my $obj =...
Platforms: *nix
License: Freeware | Size: 645.12 KB | Download (92): WordNet::Similarity::PathFinder Download |
WordNet::Similarity::vector_pairs is a Perl module for computing semantic relatedness of word senses using second order co-occurrence vectors of glosses of the word senses. SYNOPSIS use WordNet::Similarity::vector_pairs; use WordNet::QueryData; my $wn = WordNet::QueryData->new(); my...
Platforms: *nix
License: Freeware | Size: 645.12 KB | Download (97): WordNet::Similarity::vector_pairs Download |
WordNet::Similarity is a collection of Perl modules for computing measures of semantic relatedness. SYNOPSIS Basic Usage Example use WordNet::QueryData; use WordNet::Similarity::path; my $wn = WordNet::QueryData->new; my $measure = WordNet::Similarity::path->new ($wn); my $value =...
Platforms: *nix
License: Freeware | Size: 645.12 KB | Download (106): WordNet::Similarity Download |
This program is a parser that abstract a data structure from a given Entrez Gene record, and users of the parser can decide what to do/extract from the data structure. Perl Entrez Gene Parser project provides Perl parsers for NCBI's Entrez Gene based on regular expression, Parse::RecDescent,...
Platforms: Windows, Mac, *nix, Perl, BSD Solaris
License: Freeware | Download (65): Perl Entrez Gene Parser Download |
This module allows the administrator to create a wide ranging set of similarity calculations. It can out of the box, calculate similar nodes of a specific type using the search index, taxonomy terms and node title. These similarities are calculated on cron run.This module is in the middle of a...
Platforms: PHP
License: Freeware | Size: 20.48 KB | Download (41): Similarity Objects Download |
Conrad is both a high performance Conditional Random Field engine which can be applied to a variety of machine learning problems and a specific set of models for gene prediction using semi-Markov CRFs.
Platforms: Windows, Mac, Linux
License: Freeware | Size: 12.65 MB | Download (43): Conrad CRF Engine & Gene Caller Download |
Disease Gene Profiler (DGP) comprises of a set of (bioinformatics) tools that can be used to identify the genes underlying susceptibility to common multifactorial diseases (such as diabetes, asthma and cancer) using freely available datasources.
Platforms: Windows, Mac, Linux
License: Freeware | Size: 113.65 KB | Download (53): Disease Gene Profiler Download |
Perl Entrez Gene Parser project provides Perl parsers for NCBI's Entrez Gene based on regular expression, Parse::RecDescent, Parse::Yapp and Perl-byacc. Some can parse human genome annotations in minutes. Documentation and user guides are provided.
Platforms: Windows, Mac, Linux
License: Freeware | Size: 35.3 KB | Download (45): Entrez Gene Parser in Perl Download |
The home of the Gene Ontology project on SourceForge, including ontology requests, software downloads, bug trackers, and much, much more.
Platforms: Windows, Mac, Linux
License: Freeware | Size: 44.5 MB | Download (47): Gene Ontology Download |
Gene-Environment iNteraction Simulator 2 (GENS2) simulates interactions among two genetic and one environmental factor and also allows for epistatic interactions. GENS2 is based on data with realistic patterns of linkage disequilibrium, and imposes no limitations either on the number of...
Platforms: Windows, Mac, Linux
License: Freeware | Size: 60.89 MB | Download (45): Gene-Environment iNteraction Simulator 2 Download |
GRaPe - a platform-independent software tool for building integrative gene-reaction-protein (GRP) networks. It generates the kinetic equations for each reaction and outputs a SBML document. It also implements two methods for parameter estimation.
Platforms: Windows, Mac, Linux
License: Freeware | Size: 3.62 MB | Download (55): GRaPe - Gene Reaction Protein Builder Download |
LiveGMS is a PHP/MySQL driven gene editor for the game Creatures 3 / Docking Station. It provides a platform independent online editor with most features other binary genetics editors have.
Platforms: Windows, Mac, Linux
License: Freeware | Size: 1.83 MB | Download (50): Live gene manipulation system (LiveGMS) Download |
Similarity Evaluator is a tool to analyse similarity function implementations and algorithms, where is possible to compare several APIs on performance, best result, similarity and discernability values.
Platforms: Windows, Mac, Linux
License: Freeware | Size: 2.67 MB | Download (43): Similarity Evaluator Download |
a simple function that returns a colormap, C, for visualizing gene expression. C is just a N x 3 matrix [R G B] describing the range of color values.example usage: C = exp_colormap('blue-yellow',64); colormap(C);called without any arguments, it returns a [3 x 64] green-red colormap.options for...
Platforms: Matlab
License: Freeware | Size: 10 KB | Download (40): Gene Expression Colormap Download |
Function calculates cosine cross-similarity between time series of threshold crossings with time lags. It also calculates dominant lag and maximum value.More detailshttp://www.ida.liu.se/~agbur/Software.htm
Platforms: Matlab
License: Freeware | Size: 10 KB | Download (42): Cosine cross-similarity Download |
Function calculates window cross-similarity between time series of threshold crossings for selected window span. Correlation between high temporal resolution records aggregated over time for records of original resolution.More informationhttp://www.ida.liu.se/~agbur/Software.htm
Platforms: Matlab
License: Freeware | Size: 10 KB | Download (44): Window cross-similarity Download |