Search Results for "sequence scaffold, java" - Page 6
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Showing 206 open source projects for "sequence scaffold, java"
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A Java package that provides several computations related to the edit distance of strings. Other than the basic Levenshtein, this algorithm can rearange words when comparing. The class can also provide details of how words could be transformed.
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wizard4j offers a java engine that 'runs' flowcharts (written in xml). A 'flowchart run' creates a sequence of user interactions (java api, html forms, rs, ...).The result of a 'run' can be applied to template frameworks like Velocity or Freemarker
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Protein Data Bank transformed into an SQL database with a very powerful search engine and a rich web interface. The engine combines chemical, sequence and 3D structure searches. The interface provides statistics, sequence and 3D structure alignments.
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Graphical editor using HTML5 canvas for input of chemical structures, molecule interactions, as well as protein sequence and 3D structural motifs. Facilitates searches in chemo-informatics, bioinformatics and structural biology .
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nexml is an xml format that represents phylogenetic data (trees, character sequence alignments, sets of OTUs, substitution models). The format is inspired by the commonly used flat-file NEXUS format, but more robust and easier to process.
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REPEATS is a bioinformatics software designed to help biologists to analyze sequence - either nucleotide or protein - for interspersed repeats. It offers functionalities to manage sequence data, analyze and store search results for further analysis.
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helps you learn vocabulary with reference cards, interactive tests, and an auto complete homework helper, exploiting brush-teeth time and proven cognitive methods. A card has 7 new words, 7 from 4 days ago, 7 from a week ago, and 7 from a month ago.
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EMBOSS is a dynamic and comprehensive Open Source package for bioinformatics (DNA and protein sequence analysis, protein structure, phylogenetics, etc.). EMBOSS is written in C, also compatible with C++, and has a separate Java interface (Jemboss)
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An event driven software system for easy and efficient streaming of structured data. Instead of creating temporary objects and holding them in lists for passing around, chain$tar streams data directly to a sequence of chained methods.
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This is a graphical editor and code generator for Live Sequence Charts (LSCs). The code generated follows a simple execution mechanism. It shows a possible execution path. We have added a new local action construct, i.e. a self method call.
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Application for cellphone and computer to easily transfer pressed keys on cell phone via bluetooth and perform predefined shortcuts or keys sequence on PC for them.
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A java tool for anytime and interactive sequence mining. Aims at providing users with a way of analyzing her activity traces and extract activity schemes from them.
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DraGnET is designed to assist with the management of annotated draft and complete genome sequence data. DraGnET also provides a web interface for BLAST and Batch BLAST search capabilities. Each search page has instructions for the use of the page.
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Mad Math is a Math API for Java that is aimed at adding needed math functions and formulas that are not in the regular Java Math API, such as fibonacci sequence, is prime, area formulas, greatest common factor, least common multiple etc.
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The Antigen Variability ANAlyzer (AVANA) tool uses information entropy to measure variability in protein sequence alignments. It also compares alignments using mutual information, identifying the mutations that characterize specific sequence sets.
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J2dPathway project are composed of several packages: J2dPathway(biological pathway viewer), Pyrus Pathway Editor (biological CAD), and DNASequenceViewer (platform-independent sequence viewer).
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BACContigEditor is a simple sequence alignment editing tool, written in Java. It is originally developed for finishing BAC shotgun sequencing projects, but the program could be easily extended to the whole genome project.
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A bioinformatics package to analyse ESTs (Expressed Sequence Tags) easily. It contains functionalities of ESTs for EST submission, Batch BLAST and BLAST result parser, etc. easiEST contains JAVA GUI applications for analysing ESTs or other sequences
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DIY Genomics is an open source bioinformatics consortium intended to bring a collection of tools and libraries into the hands of small scale genomics labs for the process of sequence assembly and annotation. Projects include DIYA, MGAP, CRISPR, and DIYGV
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prot3d is aimed to get three-dimensional folding possibilities of a peptide given its aminoacid sequence.
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DUPS can be used to present any set of images depicting a chronological sequence. It creates a set of HTML pages acting as a browser based picture/pdf viewer. The emphasis lies on displaying two pictures side by side enabling the user to compare them.
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Mouse-keyboard macro - Click 'N Go - is completely in Java, provides ability to control mouse and keyboard by creating list of commands. User can set the sequence of the actions to be started delayed or to be looped. Currently CNG 2 is being developed
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SCAMPI is designed to rapidly detect molecular markers in silico through sequence comparison. For this purpose it creates a unique workflow integrating third party tools like NCBI Blast or Primer3.
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With this tool a single image or a sequence of images can be transformed into a Super Overlay for Google Earth.
