Search Results for "read" - Page 12
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Showing 727 open source projects for "read"
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PlaTypUS
Plasmodium Typing Utility Software
The goal of PlaTypUS is to establish a unified Plasmodium whole genome analysis tool, that aligns short read sequences in an agreed upon manner, with many quality control steps, and calls both SNVs and CNVs in a community agreed standard way. We also seek to provide this analysis in a stand-alone graphic user interface so that labs around the world can analyze their own whole genome sequencing data, rather than relying on outside institutes. -
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Mobster
Mobster: a robust tool for Mobile Element Insertion detection in NGS
Mobster is used to detect novel (non-reference) Mobile Element Insertion (MEI) events in BAM files and uses both a discordant read pair method and a split-read method. -
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This package contains code for use with Short Read DNA Sequencing technologies, and includes packages for ChIP-Seq, Whole Transcriptome Shotgun Sequencing, Whole Genome Shotgun Sequencing, SNP Detection, Transcript expression and file conversion.
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Concurrency Freaks
A library with Scalable (and fast) Read-Write locks
This library contains Java code for several Read-Write Locks: - ScalableRWLock: A rw-lock that scales with the number of threads doing read-lock. - ScalableRWLockS: Similar to above but different implementation. - ScalableStampedRWLock: An hybrid of the ScalableRWLock and the StampedLock provided in JDK 8, which provides good overall performance. - FAARWLock: Uses a Fetch-And-Add operation for the read-lock which means it is not so scalable as ScalableRWLock but it is still faster than classical implementations -
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An easy to extend Java Object formatter that currently supports conversion between JSON and Java. Because of its core architecture, other formats can easily be added (XML is already being worked on). Please read "Why JOFfree" in news area.
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JREPL
REPL for Java
JREPL is a Java REPL (Read Evaluate Print Loop). It is a lightweight tool that allows you to write lines of Java code and execute it immediately. The written code is treated as if it were written in a Java main method. JREPL can take a classpath as argument (-cp/-classpath <your classpath>) to allow the usage of your own classes. It can be easily integrated in Eclipse by adding it as an external tool; this is explained in the Readme.txt. -
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Java OutlookExpress Reader
Read Outlook Express .dbx files and parse information from them.
The Java OutlookExpress Reader is a package that allows the reading of .dbx files, the format used to store OutlookExpress emails and folders. The main reader class loads all the data from a given .dbx and parses it, allowing easy access to information through public variables and classes. This is an implementation of the work done by Arne Schloh (http://oedbx.aroh.de/). -
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QueLang
QueLang is a designing tool to use for Questionnaire Design.
...QueLang is a language I designed for Questionnaire Design and Implementation. This software can compile your code (written in .ql text files) into a special .qlc format (a kind of database). Then it can read those .qlc files to open them in viewer and export them to PDF format. It can be also used for exam and test designing! Tested on: -Linux Ubuntu 12.04 -Windows 7 64-bit QueLang can run by double clicking the .jar (or .exe) file. NOW INSTALLATION (or compilation) IS NEEDED! QueLang Survey Manager can concentrate Results of answered Questionnaires in a single database for mass statistical processing. ... -
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The Edlin toolkit provides a machine learning framework for linear models, designed to be easy to read and understand. The main goal is to provide an architecture and easy to edit working examples of implementations for popular learning algorithms.
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Bermuda Text-to-Speech
This project includes basic NLP and DSP techniques for Text-to-Speech
...page=tts This is an entirely written in JAVA project which includes a set of tools and methods designed to enable Multilingual Text-to-Speech (TTS) synthesis. We currently support English and Romanian but we will soon train more models and make them available for download. If you want to read more about our other NLP and TTS tools check out http://nlptools.racai.ro. -
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K-Surfer
A KNIME extension for the management and analysis of FreeSurfer Data
...K-Surfer consists of a suite of KNIME nodes that perform several tasks, such as importing diffusion data generated from TRACULA, importing morphological measures obtained from the segmentation and reconstruction of neuroimages and visualising the probability distribution of white matter pathways. For installation guide read the pdf inside the zip. References: Sarica Alessia, Giuseppe Di Fatta, and Mario Cannataro. "K-Surfer: A KNIME Extension for the Management and Analysis of Human Brain MRI FreeSurfer/FSL Data." Brain Informatics and Health. Springer International Publishing, 2014. 481-492. Sarica A, Di Fatta G and Cannataro M (2014). K-Surfer: A KNIME-based tool for the management and analysis of human brain MRI FreeSurfer/FSL Data. ... -
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JBarcodeReader is a software to read files or images of barcodes, is a easy way to copy in text format a description of barcodes. Open and drag the JBarcodeReader above image or file, and click in 'Capture' button, and copy the description.
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RapidJDBC
RapidJDBC - Java library for easier JDBC and SQL development
A JDBC wrapper build on AspectJ interceptors. Annotation based solution. Also provides a simple ORM for entities. For information please visit homepage or read readme.md file from source and release. -
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Fast Matrix for Java
General purpose matrix utilities for Java in Parallel Computing
Fast Matrix for Java (fm4j) is a general-purpose matrix utility library for computing with dense matrices. fm4j encapsulated different underlying implementations and select the optimal one in run-time depending on the size of the input matrix. Moreover, fm4j employs Java (Tm) Concurrency to take advantage of the computation power of multi-cor processors. -
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jAVIlib
Simple AVI/MJPEG library in pure java
A pure java port of the avilib that was part of Blender 2.37. Can read and write MJPEG-encoded AVI-contained video files only. -
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kunludi
MultiLingual Interactive Fiction
...This opens the posibility to cross-culture text games. Rather than typing, the interaction will be by pushing bottons in the style of old LucasArt games. Objectivs: a quick way to interact, comfortable way to read the output texts, and easy portability into mobile platforms. The game is being developped in JS/CSS/HTML5. -
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RSS Owl | RSS / RDF / Atom Feed Reader
RSS Owl is a powerful application to organize, search and read feeds.
RSS Owl is a powerful application to organize, search and read your news feeds in a comfortable way. It runs cross platform on Windows, Linux and Mac and can also be installed into Eclipse. RSS Owl is translated into the popular languages of the world. Some of the unique highlights are tabbed reading, powerful searches that can be saved, news filters with automated actions, embedded browser and newspaper layout, tray notifications, clean-up wizard and powerful user customization. ... -
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Ldap Address Book
LDAP client providing user friendly access to global address books.
An LDAP Client, written in Java, designed to act as the front end for a global address book implemented as an LDAP directory. Supports full read/update/delete access to directory entries. Fully configurable for all schemas. -
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TeletextViewer
Read ORF TeleText on Android
TeletextViewer – An Android application that indicates and displays Teletext articles from <http://text.orf.at> -
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WhyWaitForever Musicbox
Midi file create, save and play.
...A music notation file needs to be created. The application parses the music notation file and creates a Midi file. The application can play any Midi file. The application can read a Midi file and create an XML file from a Midi file. The application can create a music notation file from the XML file. The application includes a simple Gui interface which allows parameters to be amended and plays a scale. The application is used by Java developers to add Midi processing (Portal) to their application. The "User Guide", "Javadoc" documentation and "JUnit" tests provides an introduction to the interface, implementation and factory classes. -
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cravlAndBlock
linux tool to improve server security
...How it works: use cron to start java cravlAndBlock.jar in the same folder add properties.xml (I addes sample properties.xml file). And thats all. Program will start from cron, read properties file and make backup of hosts.deny file in backu location, cravl log file / files and add entries to hosts.deny file. It will print log information on the screen. If You are interested in cravl and block project please make a small donation for the author by paypal (to mail tjancz@gmail.com). Those donation will make the project live. ... -
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bioluminescence
A java library for polymorphic genome assembly.
...Bioluminescence implements a novel algorithm which uses an artificial neural network to classify contigs in a genome assembly as haplotype-specific or not-haplotype-specific. It then uses this information to partition the original input read set into two subsets, each of which has been enriched for one of the haplotypes. Initial results using this technique have dramatically improved de novo asseblies of such data. The implementation provided here remains partial, and under daily development, and is released as a daily "snapshot" as opposed to a static version. -
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fun4j brings functional programming to the JVM. It's a framework that integrates major concepts from functional programming into the Java Platform. It also provides seamless integration of Java with Lisp coding, by using a lisp-to-bytecode compiler.
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AlgART Java Libraries
Open source library for processing arrays and matrices
...Main features: 63-bit addressing of array elements (64-bit long int indexes), memory model concept (allowing storing data in different schemes from RAM to mapped disk files), wide usage of lazy evaluations, built-in multithreading optimization for multi-core processors, wide set of image processing algorithms over matrices, etc. - please see at the site. Almost all classes and methods are thoroughly documented via JavaDoc (you may read full JavaDoc at the site).
