Search Results for "alignment"
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Showing 74 open source projects for "alignment"
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Transcoder
Hardware-accelerated video transcoding using Android MediaCodec APIs
Transcoder by DeepMedia is an AI-powered video-to-video speech translation engine that enables fully automated multilingual dubbing. Unlike traditional speech translation systems that rely on multi-stage pipelines, Transcoder directly translates one speaker’s video into another language while preserving facial expressions, lip-sync, and vocal identity. Designed for real-time use and production-grade pipelines, Transcoder combines advanced deep learning models with GPU acceleration to deliver... -
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JetBrains Runtime
Runtime environment based on OpenJDK for running IntelliJ products
JetBrainsRuntime is the custom Java Runtime Environment (JRE) distribution maintained by JetBrains that enhances the standard OpenJDK to better support JetBrains products and provide a robust, optimized runtime for IDEs like IntelliJ IDEA, Rider, and other tools. It includes performance-tuned garbage collectors, desktop integration fixes, font rendering improvements, enhanced GTK support on Linux, and additional patches not available in stock JDK builds to ensure smoother, more stable... -
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JavaCV
Java interface to OpenCV, FFmpeg, and more
...JavaCV also comes with hardware accelerated full-screen image display (CanvasFrame and GLCanvasFrame), easy-to-use methods to execute code in parallel on multiple cores (Parallel), user-friendly geometric and color calibration of cameras and projectors (GeometricCalibrator, ProCamGeometricCalibrator, ProCamColorCalibrator), detection and matching of feature points (ObjectFinder), a set of classes that implement direct image alignment of projector-camera systems (mainly GNImageAligner, ProjectiveTransformer, ProjectiveColorTransformer, ProCamTransformer, and ReflectanceInitializer), and more. -
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IoTDB
Apache IoTDB
Apache IoTDB (Database for Internet of Things) is an IoT native database with high performance for data management and analysis, deployable on the edge and the cloud. Due to its light-weight architecture, high performance and rich feature set together with its deep integration with Apache Hadoop, Spark and Flink, Apache IoTDB can meet the requirements of massive data storage, high-speed data ingestion and complex data analysis in the IoT industrial fields. In the scene of factories, there... -
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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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NGSEP
NGSEP (Next Generation Sequencing Experience Platform)
...NGSEP also provides modules for analysis of genomic variation databases (VCF files), including functional annotation, filtering, format conversion, comparison, clustering, imputation, introgression analysis and different kinds of statistics. Since version 4, we provide functionalities for management of genomes and transcriptomes, including genome alignment and annotation of transposable elements. A complete list of functionalities is available in our wiki (https://sourceforge.net/p/ngsep/wiki/Home/). BEFORE DOWNLOADING: The green button directs to the jar for command line usage. See the wiki for the GUI and other options -
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Open Camera
Camera app for Android.
Open Camera is an Open Source Camera app for Android(TM) phones and tablets. * Get it on Google Play: https://play.google.com/store/apps/details?id=net.sourceforge.opencamera * Get it on F-Droid: https://f-droid.org/en/packages/net.sourceforge.opencamera/ * Or you can download the APK/source directly, see "Files" above. Android, Google Play and the Google Play logo are trademarks of Google LLC. -
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JDiskMark
Java Disk Benchmark Utility
JDiskMark is a powerful and versatile disk benchmarking tool written in Java, designed to help measure the performance and health of your storage drives. Whether you're testing HDDs, SSDs, or network locations, JDiskMark provides reliable insights into your disk's read and write... -
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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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TomoJ
ImageJ plugin to perform Electron Tomography
...TomoJ is written in Java, the computations are multithreaded and reconstruction can be performed on CPU or GPU (OpenCL). registration is described in: Journal of Structural Biology: X. 2020, Volume 4. "Improvements on marker-free images alignment for electron tomography" C.O.S. Sorzano et al. https://doi.org/10.1016/j.yjsbx.2020.100037. BMC Bioinformatics. 2009 Apr 27;10:124."Marker-free image registration of electron tomography tilt-series." C.O.S. Sorzano et al. reconstruction part was described in: BMC Bioinformatics. 2007 Aug 6;8:288. "TomoJ: tomography software for three-dimensional reconstruction in transmission electron microscopy."... -
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DownSmith Markdown Editor
A powerful, feature-rich Markdown editor with real-time HTML preview.
DownSmith provides an intuitive editing experience with comprehensive formatting tools, syntax highlighting, live preview, table creation, spell checking, footnotes, HTML export, and intelligent image handling. Runs without Java being installed on Windows. On macOS and Linux requires Java 11 or better installed. A Java 8 version is provided that has all the functionality of the Java 11 version except footnotes. -
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Vibrance HDR
Create HDR image effect, from a single or multiple (AEB) photos.
Vibrance HDR is an app for Android(TM), which allows you to create high dynamic range (HDR) images, either from a single photo, or from multiple* auto exposure bracketed (AEB) photos. High-dynamic-range imaging is a technique used in photography to reproduce a greater dynamic range of luminosity. This works best in conjunction with a camera app that supports taking photos at multiple different exposures. However Vibrance HDR also supports creating a "HDR-like" effect from a single... -
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Cylindrical Alignment App
Arranges alignments in a rotating cylinder
The Cylindrical Alignment App is the successor to Cylindrical BLAST Viewer. Similarly, it arranges search or other comparisons, against their "axis". Searches can be made by Basic Local Alignment Search Tool, ClustalW, or Gene Machine to name a few. This version does not require downloading or installing Java3D, and has more modern GUI features. -
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Nexplorer is a web-based phylogenetic browser, used to view and edit comparative data, and ideal for creating publication-quality views in which the tips of a tree are aligned with the rows of a character matrix (e.g., a sequence alignment).
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java-string-similarity
Implementation of various string similarity and distance algorithms
Implementation of various string similarity and distance algorithms: Levenshtein, Jaro-winkler, n-Gram, Q-Gram, Jaccard index, Longest Common Subsequence edit distance, cosine similarity. A library implementing different string similarity and distance measures. A dozen of algorithms (including Levenshtein edit distance and sibblings, Jaro-Winkler, Longest Common Subsequence, cosine similarity etc.) are currently implemented. The main characteristics of each implemented algorithm are... -
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PTESFinder
Post-Transcriptional Exon Shuffling (PTES) Identification Pipeline
...PTESFinder leverages the power of established RNASeq tools and systematically excludes all known classes of false positive structures by applying stringent filters designed to specifically target these false positives. PTESFinder compares alignment qualities of reads mapping to putative PTES structures with qualities of the same reads when mapped to genomic regions and canonically spliced transcripts. This approach increases the confidence in PTES supporting reads. Reads emanating from template-switching events are often characterised by large indels when aligned to the transcriptome. ... -
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Java Text Table Formatter is a Java library that renders tables made of characters. The user add cells and can add format characteristics like predefined/custom table styles, text alignment, abbreviation, column width, border types, colspan, etc.
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2D Statistical Models. Building: shape model, texture model and concatenated appearance model; Fitting: 1D profile ASM, 2D profile ASM, direct local texture constrained(LTC) ASM, basic AAM, ICIA AAM, IAIA AAM, etc.
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myFSG
Create FSG report in Excel format at your desktop
...For mid-size companies which reluctant to buy third-party reporting tool, FSG is the only tool to create finance reports. Creating column set, row set, include or exclude ledger accounts, column alignment, etc drive many finance users crazy every day. Even a report is created, the Excel output still requires a lot of manual changes in order to meet usable standard. myFSG is a Java program which can be executed in any Windows platform that it connects to Oracle EBS database and generate FSG report in natve Excel format using highly customizable style template. ... -
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The Maltcms - Modular Application Toolkit for Chromatography Mass-Spectrometry is a JAVA API for preprocessing, alignment, analysis and visualization of data stored in open file formats used in Proteomics and Metabolomics research.
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logmap-matcher
LogMap: An Ontology Alignment and Alignment Repair System
LogMap is a highly scalable ontology matching system with ‘built-in’ reasoning and inconsistency repair capabilities. LogMap extract mappings between classes, properties and instances. To the best of our knowledge, LogMap is one of the few matching systems that: 1. can efficiently match semantically rich ontologies containing tens (and even hundreds) of thousands of classes, 2. incorporates sophisticated reasoning and repair techniques to minimise the number of logical... -
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PolyRec
Unistroke gesture recognizer
...More technical details on PolyRec can be found in the following scientific paper: V Fuccella, G. Costagliola; Unistroke Gesture Recognition Through Polyline Approximation and Alignment; in Proceedings of CHI 2015; pp. 3351-3354 http://dl.acm.org/citation.cfm?id=2702 -
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CEMAsuite
Consensus/Degenerate Primer Design Application
CEMAsuite, is an interactive Java-based application with the ability to (i) construct a codon-equivalent multiple alignment (CEMA) from a protein multiple sequence alignment (MSA) file, (ii) generate and score each position in the consensus DNA sequence using multiple algorithms, (iii) design single-degeneracy primer backbones using Primer3 (Untergasser et al. 2012), (iv) estimate the stability of degenerate primers on each of the coding sequences within the CEMA, and (v) export intermediate results in various formats. ... -
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GridView with Header and Footer
A GridView which can addHeaderView and addFooterView
GridView with Header and Footer is a lightweight Android UI library that extends the standard GridView component by adding native support for header and footer views, a feature not originally available in default Android implementations. It allows developers to seamlessly insert additional layout elements at the top and bottom of grid-based content without breaking the grid structure or requiring complex workarounds. The library is designed to integrate smoothly into existing Android... -
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...The command line tools of Hadoop-BAM should be understandable to all users, but they are limited in scope. See the SeqPig project for a higher-level interface to the file formats supported by Hadoop-BAM: http://seqpig.sourceforge.net See Seal for Hadoop-based read alignment tools, Seal: http://biodoop-seal.sourceforge.net
