Gene Similarity

A similarity-free approach to compare the diversity of environmental viral communities Platforms: Windows, Mac, Linux

Microarray Gene Expression Database Group and OMG Gene Expression Standard (MAGE) Platforms: Windows, Mac, Linux

The Program to Assemble Spliced Alignments (PASA) is used to automatically incorporate ESTs and full-length cDNAs into gene structure annotations, in the process annotating UTRs, alternative splicing variations, and polyadenylation sites. Platforms: Mac, BSD, Linux

ngram is a module to compute the similarity between two strings. It is different to python's 'difflib.SequenceMatcher' in that it cares more about the size of both strings. ngram is an port and extension of the perl module called 'String::Trigram Platforms: Windows, Mac, Linux

RmiR is an R package for the analysis of microRNA and gene expression microarrays.The package is designed to coupling microRNA and gene expression data, using different databases, like TargetScan, mirBase, picTar,TarBase and others... Platforms: Windows, Mac, Linux

RssGsc (Rank Sum Statistics for Gene Set Collections) is a bioinformatics tool used to find meaningful gene sets using a ranked list of genes (obtained form an experiment). Platforms: Windows, Mac, Linux

SIM-DL: Semantic Similarity Measurement Server for concepts (and individuals) represented using (expressive) Description Logics (DL). Platforms: Windows, Mac, Linux

SysGenSIM is a bioinformatics toolbox to create artificial gene expression datasets by simulating Systems Genetics experiments. Platforms: *nix

HE SCND GENESIS copyright ?*A* 2011 Ifunga Ndana. All rights reserved. The THE SCND GENESIS logo, all characters, persons and/or institutions on this web site and the distinctive names and likenesses thereof, and all related indicia are trademarks of Ifunga Ndana. No similarity between any of the... Platforms: *nix

The GMM returns the cluster centroid and cluster variances for a family of points if the number of clusters are predefined. The centroid and variance can then be passed to a Gaussian pdf to compute the similarity of a input query point with reference to given cluster. Platforms: Matlab

the stationary signal f(t)=cos(2*pi*5*t)+ cos(2*pi*10*t)+ cos(2*pi*20*t)+ cos(2*pi*50*t)having frequencies of 5,10, 20and 50 Hz at any given time instant.MATLAB program can be implemented to plot the stationary signal mentioned above:Clear... Platforms: Matlab

In one type of gene expression analysis, fluorescently tagged messenger RNA from different cells are hybridized to a microscopic array of thousands of complimentary DNA spots that correspond to different genes. Illuminated spots emit different color light, indicating which genes are expressed... Platforms: Matlab

This user interface allows a user to load some Affymetrix data in an Excel file and perform some basic operations on it - log transform, log ratio, normalization, noise reduction, filtering, PCA and clustering, in addition to some visualizations like profile plots, boxplots and matrix... Platforms: Matlab

GETHGVBASE returns polymorphism data from the human genome variation db http://hgvbase.cgb.ki.seHGVDATA = gethgvbase(SNPID) reads in a %hgvbase web record fromEMBL and creates a structure DATA %containing fields correspondingto the hgvBase keywords.FIELDNAME DESCRIPTIONS: a complete %description... Platforms: Matlab

General implementation of matlab version of Viterbi algorithm specifically written for gene structure finding problem in mind. However, it can be modified to suit the goal of a user.Input:Transition Probability MatrixEmission Probability MatrixInitial Probability MatrixStates Matrix (ie.... Platforms: Matlab

Rsyso is a user interface created with Matlab dlT« to facilitate management control of monovariable linear models. Among the main functions that currently presents:d-deD? Find minimum realizations by different methods.d-deD? Conversions and main characteristics of the SISO model (transfer... Platforms: Matlab

Automated Text Review reviews texts from virtually any source and in virtually any way possible:Review... * Drupal code (using POTX). * Translation files. * *.tar.gz files that contain any of the above (using GNU Tar).Review methods * Blacklist review; filter out illegal words and phrases. *... Platforms: PHP

Taxonomy NCO uses Normalised Co-Occurrence analysis to look for relationships between terms in a freetagging vocabulary. This allows us to infer semantic relationships between terms.These modules have been developed at School of Everything. Configurable Normalised Co-occurrence Analysis of... Platforms: PHP

* jCompoundMapper provides popular fingerprinting algorithms for chemical graphs such as depth-first search fingerprints, shortest-path fingerprints, extended connectivity fingerprints, autocorrelation fingerprints (e.g. CATS2D), radial fingerprints (e.g. Molprint2D), geometrical Molprint, atom... Platforms: Mac

Seqlib is a Python module and application package for population genetics (and more). It allows processing, analyzing and simulating biological sequences. It is specifically designed for automated large-scale sequence analysis. Main features: * Fasta-centered input and output, format... Platforms: Mac