Protein Similarity

Allows the user to calculate her optimum post-workout protein shake recipe and determine right mixture of these three essential ingredients, plus her daily recommended protein dose: 1. Protein 2. Carbohydrate 3. WaterAll calculations are based on her body weight. Install : 1. Unzip the... Platforms: PHP

Bio::Tools::Run::TribeMCL is a method for clustering proteins into related groups, which are termed protein families. SYNOPSIS use Bio::Tools::Run::TribeMCL; use Bio::SearchIO; # 3 methods to input the blast results # straight forward raw blast output (NCBI or WU-BLAST) my @params =... Platforms: *nix

The Protein Molar Converter widget is a Dashboard widget that allows to perform molar conversions for proteins according to size. Platforms: Mac

ProtAnnot is a small, Java based application is a protein annotation viewer that displays protein annotations in the context of the genomic sequence. This software is a making it easy to see how alternative mRNA structures affect the various protein products encoded at a locus. for WindowsAll Platforms: Windows

The Genome Positioning System (GPS) is a software tool to study protein-DNA interaction using ChIP-Seq data. GPS builds a probabilistic mixture model to predict the most likely positions of binding events at single-base resolution. GPS is a Java software, so it runs on multiple platforms,... Platforms: Windows

TMRPres2D or TransMembrane protein Re-Presentation in 2 Dimensions for long, is a small, easy to use application designed to automate the creation of uniform, two-dimensional, high analysis graphical images/models of alpha-helical or beta-barrel transmembrane proteins. Protein sequence data and... Platforms: Windows

Main Workbench includes all features from CLC DNA Workbench, CLC RNA Workbench, and CLC Protein Workbench, as well as a range of Gene Expression Analysis. CLC Main Workbench creates a software environment enabling users to make a large number of advanced protein sequence analyses, combined with... Platforms: Windows, XP, Windows Vista, XPX64, 7, 7x64

SimPack is specially developed for the research of similarity between concepts in ontologies or ontologies as a whole. Possible other application areas of SimPack include · the investigation of similarity between software source code. For instance to detect changes between classes of... Platforms: Windows

MGWT: Identification of protein coding regions using the ModifiedGabor-wavelet transform.Sequence of test:F56F11.4.fasta (included into the zip file)http://www.ncbi.nlm.nih.gov/entrez/viewer....de&val=AF099922http://www.vision.ime.usp.br/~jmena/projec...ome_results/F5/References:[1] J. P.... Platforms: Matlab

UNFOLDPROTEIN(data, bracket) calculates the melting temperature, Tm, of a protein from a given Nx2 array of unfolding data (with N >= 10). In the case of unfolding studies performed using circular dichroism spectroscopy, the second Tm calculated using the maximum of the first derivative of the CD... Platforms: Matlab

In signal processing, cross-correlation is a measure of similarity of two waveforms as a function of a time-lag applied to one of them. This is also known as a sliding dot product or inner-product. It is commonly used to search a long duration signal for a shorter, known feature. It also has... Platforms: Matlab

To further understand the implementation of hyperparameters re-estimation technique in Bayesian hierarchical model, we added two more prior assumptions over the weight in BayesPI, namely Laplace prior and Cauchy prior, by using the evidence approximation method. In addition, we divided... Platforms: Matlab

FSA is a probabilistic multiple sequence alignment algorithm which uses a "distance-based" approach to aligning homologous protein, RNA or DNA sequences. Platforms: *nix

Cscape is an application for visualizing and navigating through data from a Reverse Phase Protein Microarray (RPMA). Cscape uses the Google Maps API to map the RPMA data on top of an image of a cancer cell and its associated pathways. Platforms: *nix

The Protein Data Bank (PDB) was established in 1971 as a repository of the atomic coordinates of protein structures (Bernstein et al., 1997). It has since outgrown that role, proving invaluable not only to the research community but also to students and educators (Berman et al., 2002). WWW::PDB... Platforms: *nix

Fast5 is a probabilistic file format for the storage of nucleotide and protein sequences based on hdf5. Platforms: *nix

ProDy is a free and open-source Python package for analyzing protein structural dynamics. It allows for quantitative analysis of heterogeneous experimental structural datasets and comparison with theoretically predicted conformational dynamics. The input for ProDy is the atomic coordinates of... Platforms: *nix

Sound-Similar (Free Version) is a lightweight software application that measures the perceptual similarity between two WAV files in Linear PCM format, the most commonly used format in WAV files. The degree of similarity is represented by a similarity score in percentage, from 0% to 100%. The... Platforms: Windows, Windows 7

Bio2Midi converts the text of a DNA or protein sequence to a MIDI file, which you may immediately audition, or import into any MIDI sequencer for further compositional processing. Choose to listen to the sequences as 4-note DNA bases, or as 20-note protein amino acids, or both at once. You can... Platforms: Windows

Pimp My Meal 1.0 is a simple program that calculates the quantity of calories according to grams of protein, fat and carbohydrates, and expresses the results in a diagram where you can also see percentages.Calculate the BMI: Body Mass Index, and the BMR: Basic Metabolism Rate, or the calories... Platforms: Windows