Search Results for "sequence scaffold, java" - Page 8
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Showing 206 open source projects for "sequence scaffold, java"
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Tools for comparative sequence analysis. Includes FamilyRelations (GUI) and a C++ toolkit/Python wrapper for doing fixed-width-window analyses.
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A Mass Spectrometer B and Y ion labeling software for proteomics researchers. Peptide sequences can be read from a library and b and y ions will be calculated and sequence can be manipulated by the user (chem. mod. or amino acid mod.)
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An interactive, graphical bar-code reader that scans an image using the user's scanner and decodes it into digits, placing them on the clipboard. Also generates barcodes from a digit sequence.
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JDBC-Script is an Ant task that helps to set up complex databases. The database commands are written in an XML file and executed via JDBC. This helps to execute them in the right sequence and have an automatic failure detection.
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ESTminer is a Web application and database schema for interactive mining of expressed sequence tag (EST) contig and cluster data sets.
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LineageEvolver is a simulation system for molecular evolution. Sequence evolution is simulated using modular processes such as substitutions, gene duplication/death, horizontal gene transfer, and more.
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DNAGalaxy is an attempt to produce an open-source bioinformatics software alternative to the expensive DNAStar Lasergene software. Its features currently include Blast and Entrez searching, a frontend to clustal and a sequence editor. It requires java1.5
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JAligner is an open source Java implementation of the dynamic programming algorithm Smith-Waterman with Gotoh's improvement for biological local pairwise sequence alignment with the affine gap penalty model.
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jDiSeq is a recording facility for call sequences within any Java Virtual Machine. Typical usage is to generate UML (Unified Modeling Language) sequence diagrams of a running system - client or serverside.
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GATA is a graphic alignment tool for comparative sequence analysis. It makes use of BLAST to graphically align two DNA sequences, creating box- line- box representations of window scored local alignments. GATA also displays extensive GFF gene annotation.
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Sequence studio main package provides classes and interfaces for various kinds of sequence alignment. Differently from regular expressions it computes similarity with two initially unknown strings. Project page provides code generating applet.
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The UCM Scenario Exporter allows you to export your UCM scenarios from XML (as generated by the UCMNav tool) to UML sequence diagrams conforming to the XMI standard. The UCM Scenario Exporter also incorporates the functionality to generate TTCN and MSC f
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This is Regular Expressions for Objects. Traditionally, regular expressions match character patterns on sequence of characters. oregex matches object patterns on object streams.
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TweakKey adds keyboard macros and autotext entries to all Windows programs. You can redefine your keyboard and use any key sequence or word to insert arbitrary text or execute macros written in scripting host languages (JScript, VBS, etc) or Java.
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NeoBio is a Java class library of Computational Biology Algorithms. The current version consists mainly of pairwise sequence alignment algorithms such as the classical dynamic programming methods of Needleman-Wunsch and Smith-Waterman.
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Java based tool for rapidly creating sequence and class diagrams as gifs from java .jar files. The napkin can also reverse engineer existing java jars and display the structure graphically.
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JFetch is an application to download your email through protocols like POP3 and IMAP. The decision of whether to download a mail or not is made through a sequence of filters. The user can easily add customized filters to this sequence.
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UMDS is small, strong and expansible project. The model offers a uniform method of conceptual view of the diverse data as a sequence of bits and a uniform method of keeping and processing this sequence on the external storage.
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Calculates the shape of a telescope mirror from a sequence of Foucault test images. Java-based GUI simplifies entering and organizing measurement data. Logging and comparison functions enable quantification of the effects of various figuring strokes.
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This is a library for MFi(.mld) format (cellular phone sequence sound for NTT DoCoMo) and SMAF(.mmf) format (for YAMAHA chips). The goal of this project is to be one of SPI javax.sound.midi compliant. May also apply this library on android platform.
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JSeq is a tool to automatically create UML sequence diagrams. It works by following the execution of a Java program, noting each method entry and exit. It then generates a sequence diagram from this information.
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AutoCRUD is a Java framework that can generate web application scaffold code from a database schema, similar to RoR. It uses the standard Maven2 web project structure, Spring for MVC, and Velocity for templating. Currently works with MySQL.
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Takes in a simple text file and converts it into a UML diagram. Currently simple sequence diagrams are implemented. The diagramming space on Linux boxes isn't great and I wanted a way to quickly put together a sequence diagram.
