Search Results for "sequence scaffold, java" - Page 8
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Showing 213 open source projects for "sequence scaffold, java"
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TaxonDNA is a simple but extensible system for performing simple DNA (and other) sequence manipulations in Java. We hope to create a simple framework which can be quickly extended to create bioinformatics applications.
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PROMPT is a system for retrieval, analysis, mapping and comparison of proteins. It allows easy mapping of different types of sequence IDs, data retrieval and integration, a multitude of analysis and comparison algorithms and a full-blown easy to use GUI.
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winKnocks is an encrypted(DES) port knocking tool. Knock sequences are defined through XML files; users specify: number of packets of each knock sequence, payload and header of each packet. Logging capability. Generation of smoke packets.No replay-attack
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An investigation into an audio compression technique which identifies repeating sequences in audio and uses this information to compress the audio data.
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StatGen uses information from a genetic distance matrix or a newick tree to summarize the sequence variation within or between groups of sequences with summary statistics and produce graphical reports of those statistics.
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Jassda is a framework that extracts a sequence of method-invokations from a Java application during runtime using the Java Debug Interface (JDI). Jassda provides two modules that operate on the sequence: a logger and a trace-checker
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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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Build Agents and Models on One PlatformGemini Enterprise Agent Platform is Google Cloud's comprehensive platform for developers to build, scale, govern, and optimize agents and models. Choose from Google's most advanced models and third-party models like Anthropic's Claude Model Family.
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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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A port to C# of a lexical analyzer tool called JFlex. Produces Java or C# source code files for scanning an input stream and producing a sequence of tokens. Compatible with CUP (Constructor of Useful Parsers).
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The SEQGEN (Sequence Generator) is a Java API designed to generate and validate string sequences like passwords.
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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.
