Showing 617 open source projects for "clip-4-win"

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  • 1
    Jmol

    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...
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    Downloads: 1,878 This Week
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  • 2
    PyRx - Virtual Screening Tool

    PyRx - Virtual Screening Tool

    Virtual Screening software for Computational Drug Discovery

    PyRx is a Virtual Screening software for Computational Drug Discovery that can be used to screen libraries of compounds against potential drug targets. PyRx enables Medicinal Chemists to run Virtual Screening from any platform and helps users in every step of this process - from data preparation to job submission and analysis of the results. While it is true that there is no magic button in the drug discovery process, PyRx includes docking wizard with easy-to-use user interface which makes...
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    Downloads: 1,642 This Week
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  • 3
    CBFlib
    CBFLIB is a library of ANSI-C functions providing a simple mechanism for accessing Crystallographic Binary Files (CBF files) and Image-supporting CIF (imgCIF) files. The CBFLIB API is loosely based on the CIFPARSE API for mmCIF files.
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    Downloads: 151 This Week
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  • 4
    ... Bayesian classifier for rapid assignment of rRNA sequences into the new bacterial taxonomy. Appl Environ Microbiol. 2007 Aug;73(16):5261-7. 2. Wang Q, Cole JR. Updated RDP taxonomy and RDP Classifier for more accurate taxonomic classification. Microbiol Resour Announc. 2024 Apr 11;13(4):e0106323.
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    Downloads: 81 This Week
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  • 5
    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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    Downloads: 47 This Week
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  • 6
    Free DELTA

    Free DELTA

    Software tools for processing taxonomic descriptions in DELTA format

    The Free DELTA Project is a free, open-source, software alternative for a generic system to the processing of taxonomic descriptions based on the DELTA (DEscription Language for TAxonomy) format.
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    Downloads: 13 This Week
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  • 7
    mzMatch is a Java collection of small commandline tools specific for metabolomics MS data analysis. The tools are built on top of the PeakML core library, providing mass spectrometry specific functionality and access to the PeakML file format.
    Downloads: 10 This Week
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  • 8
    NGSEP

    NGSEP

    NGSEP (Next Generation Sequencing Experience Platform)

    ..., 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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    Downloads: 8 This Week
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  • 9
    A software package that implements the probabilistic record linkage technique (PRL). This is a new, improved, open-source, multi-platform version of the previously available program, by the same authors.
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    Downloads: 7 This Week
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  • 10
    Conscious Artificial Intelligence

    Conscious Artificial Intelligence

    It's possible for machines to become self-aware.

    This project is a quest for conscious artificial intelligence. A number of prototypes will be developed as the project progresses. This project has 2 subprojects: Object Pascal based CAI NEURAL API - https://github.com/joaopauloschuler/neural-api Python based K-CAI NEURAL API - https://github.com/joaopauloschuler/k-neural-api A video from the first prototype has been made: http://www.youtube.com/watch?v=qH-IQgYy9zg Above video shows a popperian agent collecting mining ore from 3...
    Downloads: 3 This Week
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  • 11
    PUMA Repository

    PUMA Repository

    Pascal Units for Medical Applications

    The PUMA Repository is a collection of Pascal units for medical informatics. It contains reusable source code for a wide field of health-care application development. The code includes a support engine for the European Data Format (EDF and EDF+), converting functions for units of measurement and an HL7 engine. PUMA is compatible with Lazarus and Free Pascal. Some of the units also support other Pascal implementations including Delphi, winsoft Pocket Studio and other compilers.
    Downloads: 3 This Week
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  • 12
    PlateEditor

    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...
    Downloads: 2 This Week
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  • 13
    PANDA

    PANDA

    A comprehensive and flexible quantification tool for proteomics data

    PANDA is a comprehensive and flexib tool for quantitative proteomics data analysis, which is developed based on our solid foundations in quantitative proteomics for years. Several novelties have been implemented in it. First, we implement the advantage algorithms of LFQuant (Proteomics 2012, 12, (23-24), 3475-84) and SILVER (Bioinformatics 2014, 30, (4), 586-7) into PANDA. Second, we consider the state-of-art concept of quantification reliability in this quantitative workflow. On the levels...
    Downloads: 1 This Week
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  • 14
    FungiRegEx

    FungiRegEx

    FungiRegEx

    This tool is a web-based search engine for regular expressions in the proteomes, all the information is obtained from the JGI (Joint Genome Institute) database through a scraper for all the available species; therefore this tool only considers fungi organisms. In this version, we use React JS in front-end and NodeJS + Express for back-end. Full Documentation Available on: https://victormiguelterronmacias.slite.page/p/J7BJU3hXhd72EJ/FungiRegEx-Software-documentation If you want to...
    Downloads: 0 This Week
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  • 15
    Croizat

    Croizat

    A software package for quantitative analysis in Panbiogeography

    Croizat is a free, user-friendly, cross-platform desktop software package which biologists can use to integrate and analyze spatial data on species or other taxa and to explore geographical patterns in diversity under a panbiogeographic and graph-theoretic approach.
    Downloads: 0 This Week
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  • 16
    NeuroML is an XML-based description language for defining and exchanging neuronal cell, network and modeling data including reconstructions of cell anatomy, membrane physiology, electrophysiological data, network connectivity, and model specification
    Downloads: 0 This Week
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  • 17
    The Simplest Manual Counter

    The Simplest Manual Counter

    Manual counter with the keyboard or the mouse on images

    The only open source counter to count any items the simplest and easiest way with the keyboard, or the mouse specifically on images. After associating a key to each item, or a predefined graphical symbol for images, pressing the key or clicking on the image increments its associated counter, and displays (for the images) the symbol at the mouse's pointer location. Such a project is so simple a child could use it!
    Downloads: 5 This Week
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  • 18
    sRNAWorkbench

    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
    Downloads: 1 This Week
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  • 19

    SASA Tool

    SWATH-Auto System Analyzer Tool, SASA Tool

    SWATH-Auto System Analyzer Tool, SASA Tool, is a novel SWATH platform for non-targeted metabolomics data analysis with an accurate mass spectral library for metabolite identification using SWATH acquisition mode.
    Downloads: 0 This Week
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  • 20
    diagnostic-keyword-index

    diagnostic-keyword-index

    Healthcare Diagnostic Keyword Index

    Downloads: 0 This Week
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  • 21
    Design PCR primers from DNA sequence. Widely used (190k Google hits for "primer3"). From mispriming libraries to sequence quality data to the generation of internal oligos, primer3 does it. C&perl. Developers/testers/documenters needed.
    Downloads: 53 This Week
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  • 22

    misc genomics tools

    Various scripts used in sequencing, annotation and RNAseq analysis

    This is a collection of various programs developed in the course of a genomics project, involving the Pseudomonas strain NCIMB10586 These include * identifying and correcting errors in an (eg) pacbio genome sequence using illumina reads * prokaryotic sequence/genome annotation * RNAseq analysis - normalisation and collation of multiple samples as a group * RNAseq visualisation All scripts are provided on a 'best efforts' basis, however due to various system changes I do not...
    Downloads: 0 This Week
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  • 23
    ECOLOG

    ECOLOG

    A database management system for ecological field surveys

    ECOLOG is a specimen-based, cross-platform relational database management system, aimed at the storage, retrieval and preliminary analysis of data on sites, species, and specimens gathered in ecological field surveys and biodiversity inventories. The main goal of ECOLOG is to make the data gathered in ecological field surveys readily accessible, providing lists of species collected in the study area and informations on habitat preferences, abundance or rarity of a given species, biometrics,...
    Downloads: 0 This Week
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  • 24
    CStone

    CStone

    Short-read de novo assembler that identifies chimeric contigs.

    > CStone wiki: https://sourceforge.net/p/cstone/wiki/Home/ Related Software: 1. CStone: (See wiki) 2. CSReadGen: https://sourceforge.net/projects/csreadgen/ 3. CView: https://sourceforge.net/projects/cview/ 4. ChimSim: https://sourceforge.net/projects/chimsim/ 5. TVScript: https://sourceforge.net/projects/tvscript/
    Downloads: 0 This Week
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  • 25

    dualword-chem

    chemical viewer

    chemical viewer written in C++ (Qt, RDKit) Source code: http://github.com/dualword/dualword-chem
    Downloads: 0 This Week
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