Open Source JavaScript Bio-Informatics Software
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JavaScript Bio-Informatics Software
View 59 business solutionsBrowse free open source JavaScript Bio-Informatics Software and projects below. Use the toggles on the left to filter open source JavaScript Bio-Informatics Software by OS, license, language, programming language, and project status.
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Jmol
An interactive viewer for three-dimensional chemical structures.
Over 1,000,000 page views per month. Jmol/JSmol is a molecular viewer for 3D chemical structures that runs in four independent modes: an HTML5-only web application utilizing jQuery, a Java applet, a stand-alone Java program (Jmol.jar), and a "headless" server-side component (JmolData.jar). Jmol can read many file types, including PDB, CIF, SDF, MOL, PyMOL PSE files, and Spartan files, as well as output from Gaussian, GAMESS, MOPAC, VASP, CRYSTAL, CASTEP, QuantumEspresso, VMD, and many other quantum chemistry programs. Files can be transferred directly from several databases, including RCSB, EDS, NCI, PubChem, and MaterialsProject. Multiple files can be loaded and compared. A rich scripting language and a well-developed web API allow easy customization of the user interface. Features include interactive animation and linear morphing. Jmol interfaces well with JSpecView for spectroscopy, JSME for 2D->3D conversion, POV-Ray for images, and CAD programs for 3D printing (VRML export). -
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OpenClinic GA
Open Source Integrated Hospital Information Management System
OpenClinic GA is an open source integrated hospital information management system covering management of administrative, financial, clinical, lab, x-ray, pharmacy, meals distribution and other data. Extensive statistical and reporting capabilities. -
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QUAST
Quality Assessment Tool for Genome Assemblies
QUAST performs fast and convenient quality evaluation and comparison of genome assemblies. It is maintained by the Gurevich lab at HIPS (https://helmholtz-hips.de/en/hmsb). For the most up-to-date description, please visit http://quast.sf.net. Below are just some highlights. QUAST computes several well-known metrics, including contig accuracy, the number of genes discovered, N50, and others, as well as introducing new ones, like NA50 (see details in the paper and manual). A comprehensive analysis results in summary tables (in plain text, tab-separated, and LaTeX formats) and colorful plots. The tool also produces web-based reports condensing all information in one easy-to-navigate file. QUAST and its three follow-up papers (MetaQUAST, Icarus, QUAST-LG) papers were published in Bioinformatics; the last paper (WebQUAST) is out in Nucl Acid Research. -
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Open Information Systems for Emergency Services (Open ISES) is a community of software developers, paramedics, EMTs, law enforcement & fire fighters working together to create open source software & training materials for the emergency service community.
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AMBIT:Chemical Structure DB&Web Service
Chemical structures database & machine learning with web services API
AMBIT offers a cheminformatics data management for chemical substances, structures and nanomaterials. Flexible structure, similarity and study queries storage, descriptor calculation and predictive models building via REST web services.User interface for creating read across assessment and generating reports, aligned with regulatory and industrial requirements. Command line applications also available. Integration with third party tools and databases. -
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FreeLIMS | Free LIMS
Laboratory Information Management System
FreeLIMS is a Laboratory Information Management System ( LIMS ). Manage samples; create sample types from methods & parameters; easily generate reports & certificates; fine tune user rights. FreeLIMS is Open Source and Free. -
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iCn3D
Web-based protein structure viewer and analysis tool
"I see in 3D" (iCn3D) Structure Viewer is not only a web-based 3D viewer, but also a structure analysis tool interactively or in the batch mode using NodeJS scripts based on the npm package icn3d. iCn3D synchronizes the display of 3D structure, 2D interaction, and 1D sequences and annotations. Users' custom displays can be saved in a short URL or a PNG image. The complete package of iCn3D including Three.js and jQuery is in the directory "dist" after you get the source code with the "Code" button. View a 3D structure in iCn3D, input a PDB ID, and click "Load". You can also click the "File" menu to "Open File" or input other IDs. You can open a browser in your Virtual Reality (VR) headset and view a 3D structure in iCn3D. Then click the button "Enter VR" at the bottom center of your browser to enter the VR view. You can select residues with the trigger button. -
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Integrated Hospital Information System. PHP,mySQL,PostgreSQL. Surgery, Nursing,Outpatient,Wards,Labs, Pharmacy, Security,Admission,Schedulers, Repair, Communication & more. Multilanguage, WYSIWYG forms, userconfig, embedded workbots. Modular & scalab
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The Sashimi project hosts the Trans-Proteomic Pipeline (TPP), a mature suite of tools for mass-spec (MS, MS/MS) based proteomics: statistical validation, quantitation, visualization, and converters from raw MS data to the open mzML/mzXML formats.
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Photo and Video Editing APIs and SDKsUnlock Picsart's full editing suite by embedding our Editor SDK directly into your platform. Offer your users the power of a full design suite without leaving your site.
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GMOD is a set of interoperable open source software components for visualizing, annotating, and managing biological data. See http://gmod.org for more.
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miRge3
Comprehensive analysis of small RNA sequencing data
An update to Python package to perform comprehensive analysis of small RNA sequencing data, including miRNA annotation, A-to-I editing, novel miRNA detection, isomiR analysis, visualization through IGV, processing Unique Molecular Identifieres (UMI), tRF detection and producing interactive graphical output. miRge3.0 is developed in python v3.8 and is a recent update of our previous version miRge2.0. This build includes command line interface (CLI) and cross-platform Graphical User Interface (GUI). For more details refer to documentation link below. -
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GPL-licensed Electronic Medical Record and Practice Management system for medical providers that runs in any web browser in multiple languages. It provides an XML-RPC backend and multiple import and export formats, as well as reporting and other features
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UnityMol
Molecular viewer and prototyping framework
Implementation of a visualization prototype for molecular structures and networks using the Unity3D game engine. Implementation of numerous graphical methods as spheres, particle systems, bond, etc.. as well as our recent HyperBalls methodology (see: www.hyperballs.sf.net). -
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FijiWings for Mac and Windows
automated fly wing analysis
Overview: Here we present FijiWings for Mac and Windows, a set of macros designed to perform semi-automated morphophometric analysis of a wing photomicrograph. FijiWings uses plug-ins installed in the Fiji version of ImageJ to rapidly and accurately measure wing area, reliably detect trichome positions and calculate trichome density of a wing region selected by the user. UPDATES: 12-6-20 Fijiwings 2.4 for Mac is uploaded. Bundles JAVA and ImageJ update to the current day. Following download, runs on a Imac and a MacBook running Mojave and Catalina. Follow the steps outlined in "README.txt" file for proper set up. -
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PlateEditor
PlateEditor, a free web application to work with multi-well plates
PlateEditor is a free web application to work with multi-well plates, from creation of layouts to data visualization and aggregation. It is primarily designed as a tool to help scientists working in the field of biology to simplify and fasten the process of data analysis. It is fully client-side: files are never transferred to the server, ensuring complete security and privacy of research data. It doesn't require any installation. - PlateEditor is available at this address: https://plateeditor.sourceforge.io - The source code is also available on GitHub, visit: https://github.com/vindelorme/PlateEditor More information about the source code and the API are available there (the wiki is still under construction, thanks for your patience!) For a list of recent updates, visit: https://sourceforge.net/p/plateeditor/wiki/Updates/ Hoping PlateEditor will make your life easier in the lab! If yes, please cite us: https://doi.org/10.1371/journal.pone.0252488 -
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ClearCanvas
Open source DICOM and RIS/PACS informatics platform
Open source code base for enabling software innovation in imaging. The extensible and robust platform includes viewing, archiving, management, workflow and distribution of images as well as an open architecture for core competency tool development. -
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sciNote
Open source electronic lab notebook (ELN) for scientists
sciNote is an open source electronic lab notebook (ELN) that helps you manage your laboratory work and stores all your experimental data in one place. sciNote is specifically designed for life science students, researchers, lab technicians and group leaders. -
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BMF
Bio Medical Framework (BMF)
The BMF is a Software Framework developed in Java language for the creation of web applications on the server platform also Open source, in clinical, administrative and management for a healthcare company. -
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BioGenie
BioGenie is presented as a complete package for Biological solutions.
Bioinformatics as an emerging research area spreads out many challenges to both the Bioinformaticists and the Bioinformaticians. BioGenie is presented as a complete package for tackling these challenges. Accommodating all three platforms, that is, a desktop application, a web application and a mobile (android-based) application, BioGenie outperforms all existing softwares engineered to assist heavy and complex computations. The GUI is very well-designed guiding the user technically with ease. -
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CellPublisher is a free, open source program to improve the navigation of biological pathways. It converts CellDesigner diagrams into fully-featured maps that live inside a browser. The navigation is based on the Google maps API.
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Clover
a simple lab information management system (LIMS)
Clover is a simple lab information management system (LIMS) designed for biology labs, especially plant biology labs. It provides an easy way to manage and handle the information of lab material, catalogs (inventories), and orders. USE PHP 5.*! Clover will not work on PHP 7.*! The wiki page contains detailed help documents: https://sourceforge.net/p/cloversystem/wiki/Home/ For lab instrument scheduling, please use Cloveriver: https://sourceforge.net/projects/cloveriver/ Please do NOT store passwords using your browser. This does not work for Cloveriver, because it encodes your passwords before send to the server for verification. Please rate, like, share, and tweet, if you like this program! -
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Krona
Hierarchical data browser
Krona allows hierarchical data to be explored with zoomable HTML5 pie charts. Krona charts can be created using an Excel template or Krona Tools, which includes support for several bioinformatics tools and raw data formats. -
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A medical information system for Windows-based systems (95-XP/CE/PocketPC) based on Open Source platforms
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A Swing Gantt Chart component, used for rendering tasks and entries. Industry uses: Scheduling / Time Management
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ASSD is a simple biological sample database focused on the storage of proteomics data. It tracks every processing step incl. results throughout a sample's lifetime. Next to proteomics data it can also store other results like FACS or Western Blots.
