Search Results for "sequence scaffold, java"
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Showing 213 open source projects for "sequence scaffold, java"
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GoAnywhere Managed File Transfer (MFT)GoAnywhere MFT provides secure managed file transfer for enterprises. Deployable on-premise, in the cloud, or in hybrid environments, GoAnywhere MFT software enables organizations to exchange data among employees, customers, and trading partners, as well as between systems, securely. GoAnywhere MFT was a recipient of the Cybersecurity Excellence Award for Secure File Transfer.
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New Relic provides the most powerful cloud-based observability platform built to help companies create more perfect software.Correlate issues across your stack. Debug and collaborate from your IDE. AI assistance at every step. All in one connected experience - not a maze of charts.
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Serverless Java container
A Java wrapper to run Spring, Spring Boot, Jersey, and other apps
...This means you can keep much of your familiar Java-based architecture (controllers, filters, dependency injection) and deploy it in a serverless environment without rewriting everything from scratch. The project supports multiple framework flavors and versions, provides archetypes (Maven/Gradle) to scaffold applications, and maintains separate branches for legacy (Java EE/1.x) and modern (Jakarta EE/2.x+) ecosystems. -
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PlantUML
Generate diagrams from textual description
Generate UML diagram from textual description. PlantUML is not affected by the log4j vulnerability. The easiest way to test PlantUML is in an online solution that has PlantUML embedded, such as our online server. After testing, you may want to install PlantUML locally. Run (or have your software call) PlantUML, using sequenceDiagram.txt as input. The output is an image, which either appears in the other software, or is written to an image file on disk. Diagrams are defined using a simple and... -
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The Ballerina programming language
The Ballerina Programming Language
Ballerina is an open-source programming language for the cloud that makes it easier to use, combine, and create network services. Network primitives in the language make it simpler to write services and run them in the cloud. Structural types with support for openness are used both for static typing within a program and for describing service interfaces. Type-safe, declarative processing of JSON, XML, and tabular data with language-integrated queries. Explicit error handling, static types,... -
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Kamon Telemetry
Distributed Tracing, Metrics and Context Propagation for applications
Kamon Telemetry is a set of libraries for instrumenting applications running on the JVM. With Kamon Telemetry you can collect metrics, propagate context across threads and services, and get distributed traces automatically. The best way to get started is by following our installation guides and taking it from there. Have fun with Kamon. Monitor your backend applications, fix performance issues, and get alerted when problems happen. All without being a monitoring expert. Everybody starts... -
Enterprise-Class Managed File Transfer.Diplomat MFT by Coviant Software is a secure, reliable managed file transfer solution designed to simplify and automate SFTP, FTPS, and HTTPS file transfers. Built for seamless integration, Diplomat MFT works across major cloud storage platforms, including AWS S3, Azure Blob, Google Cloud, Oracle Cloud, SharePoint, Dropbox, Box, and more.
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BRIG is a cross-platform (Windows/Mac/Unix) application that can display circular comparisons between a large number of genomes, with a focus on handling genome assembly data. Please cite the BRIG paper if BRIG is used to generate figures for publications: NF Alikhan, NK Petty, NL Ben Zakour, SA Beatson (2011) BLAST Ring Image Generator (BRIG): simple prokaryote genome comparisons, BMC Genomics, 12:402. PMID: 21824423
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The MolTools Java library provides tools for building applications that handle nucleotide sequence data. Features include sequence I/O, handling of lists/databases of sequences, calculation of Tm, and other utilities for sequence design.
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PFAAT is a Java-based multiple sequence alignment editor and viewer designed for protein family analysis. You can download PFAAT from http://pfaat.sourceforge.net/
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Mahjongg Solitaire
Classic Mahjongg Solitaire with a few handy features to fun gameplay
Classic Mahjongg Solitaire with a few handy features to fun gameplay. (Requires Java). -
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JDiskMark
Java Disk Benchmark Utility
JDiskMark is a powerful and versatile disk benchmarking tool written in Java, designed to help you accurately measure the performance of your storage devices across different operating systems. Whether you're testing HDDs, SSDs, or network drives, JDiskMark provides reliable insights into your disk's read and write speeds. ubuntu/debian: https://sourceforge.net/projects/jdiskmark/files/jdiskmark_0.7.0_amd64.deb/download rhel /... -
Centralized Workload Automation and Job SchedulingOrchestrates any process from a single point of control. Build reliable, low-code workflows in half the time. Develop end-to-end business and IT processes faster with hundreds of drag-and-drop actions. Coordinate enterprise-wide MFT processes using dozens of prebuilt actions for common file operations.
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miRDeep*
MiRDeep*
Please cite: An, J., Lai, J., Lehman, M.L. and Nelson, C.C. (2013) miRDeep*: an integrated application tool for miRNA identification from RNA sequencing data. Nucleic Acids Res, 41, 727-737. We will create index for you if you tell us your interested species (j.an@qut.edu.au). download command line version "MDS_command_line_Vxx.zip" clicking "Browse All Files" please find miRPlant in sourceforge for plant miRNA prediction. -
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ProbeMaker is a framework for design of sets of oligonucleotide probes. It allows the design of different types of probes made up of separate sequence elements. A Plug-in mechanism allows extension of the framework with new functionalities.
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JSchemePlus
An hack of Jscheme with a lot of enhancements and additional features.
...It allows to redistribute a script in an executable JAR file of only ~40K and implements all of R4RS with a lot of additional functions, like: (execute command) (random) (sequence from up-to step) (split list element) (string-split string sub-string) (read-all-from-file file) (write-to-file file data) (file-size file) etc... For the complete list read the HELP file or type (help). JSchemePlus needs only the Java Virtual Machine (version 6 or higher) that, in the case, is very easy to download and install. -
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Chess Round Robin Manager
Java Schach Turnierverwaltung / Java Chess Tournament Management
Manage chess round robin tournaments with JKlubTV Version 3.0.0-beta This application stores the data belonging to round robin into a SQLite database. It is intended for webmasters who want to easily manage a club tournament in their own chess club. The HTML tables that are to be published for the website will be created easily by the application. Automatically calculate the total points, Sonneborn Berger points of each player, as well as their sequence DWZ, and sorts the HTML table by the... -
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Billiards Covers
This zip jar contains the current coverings of periodic paths.
Researchers, Mathematicians and Enthusiasts. Download "Billiards Covers" to see the most current list of periodic paths in triangles. Download "Billiards Everything" to discover new periodic billiard paths, an unresolved problem from 1775! Follow "The Great Periodic Path Hunt" at gwtokarsky.github.io for the latest news. Email tokarsky@ualberta.ca for feedback. -
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flom
Free Lock Manager
...Shell commands, scripts and custom programs can be synchronized inside a single system or in a network of IP connected systems. FLoM supports different types of abstract resources: simple, numeric, set, hierarchical and transactional sequence. libflom, the library shipped with FLoM, allows you to develop your own application using a simple C, C++, Java, Perl, PHP or Python client API. SSL/TLS security for network communication, X.509 certificates for peer to peer mutual authentication. -
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GETL
ETL engine based on Groovy
P.S. Dear friends. Repository migration to https://github.com/ascrus/getl . You can download jar file from this site or maven. GETL - based package in Groovy, which automates the work of loading and transforming data. His name is an acronym for «Groovy ETL». GETL is a set of libraries of pre-built classes and objects that can be used to solve problems unpacking, transform and load data into programs written in Groovy, or Java, as well as from any software that supports the work with... -
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Scaffold Hunter is a JAVA-based software tool for the analysis of structure-related biochemical data. It enables generation of and navigation in a scaffold tree hierarchy annotated with various data.
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FastQC
A quality control analysis tool for high throughput sequencing data
FastQC is a quality control analysis tool designed to spot potential problems in high throughput sequencing datasets. Its goal is to provide a simple way by which to check the quality of raw sequence data coming from high throughput sequencing pipelines. It does this by running a modular set of analyses on one or more raw sequence files in fastq or bam format. It then produces a report summarizing the results, and highlighting any areas where the library may appear unusual. This should then... -
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SequenceDiagram
SequencePlugin for IntelliJ IDEA
Sequence Diagram is a tool to generate simple sequence diagrams (UML) from Java, kotlin, scala(Beta), and Groovy (limited) code. -
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JKlubTV
Java Schach Turnierverwaltung / Java Chess Tournament Management
Manage chess round robin tournaments with JKlubTV Version 3.0.0-beta This application stores the data belonging to round robin into a SQLite database. It is intended for webmasters who want to easily manage a club tournament in their own chess club. The HTML tables that are to be published for the website will be created easily by the application. Automatically calculate the total points, Sonneborn Berger points of each player, as well as their sequence DWZ, and sorts the HTML table by the... -
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SpeedGaps
A Java AWT desktop application for Gaps Solitaire (aka "Montana").
A Java AWT desktop application for Gaps Solitaire (aka "Montana"). It uses a reduced card deck to fast play. -
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sRNAWorkbench
The UEA sRNA Workbench
A suite of tools for analysing small RNA (sRNA) data from Next Generation Sequencing devices. Including expression profiling of known mirco RNA (miRNA), identification of novel miRNA in deep-sequencing data and identification of other interesting landmarks within high-throughput genetic data -
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BitLogic
Simple Java computer algebra calculator
A calculator that solves many types of problems including solving equations computing derivatives and integrals simplifying expressions graphing equations 2d and 3d reverse polish notation, algebraic and word based interpreter infinite writing board for writing out equations requires java 11 or more -
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photogrid
Minimalistic tool to arrange images in a grid, saving the result as a
Minimalistic tool to arrange images in a grid, saving the result as a png image (or sequence of png images). Usage java -cp photogrid-1.0.jar tech.rallen.photogrid.Main This has been tested with OpenJDK 11, and should work with any version of Java from 11 on. The tool takes 5 optional command line parameters 0 : path of input directory (default is ./testimages). 1 : width (in pixels) of each input image in the output image (default 1000) 2 : height (in pixels) of each input image in the output image (default 1000) (note the image will be scaled maintaining aspect ratio so it fits within both the width and height above) 3 : number of images per row in the output image(s) 4 : number of images per column in the output image(s) (default is to make a square with enough rows/columns to fit all the input images in a single output image) 5 : output path and filename, this will be suffixed by either just '.png' or if there is more than one -
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NGSpop
NGSpop: identifying & visualizing sequence variation in deepvariant
*NOTICE* The official software(NGSpop) will be updated soon, so please visit us in 2/29. Thank you.
