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30 Results

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    A spherical harmonics framework for whole-embryo mechanics modeling
    A spherical harmonics framework for whole-embryo mechanics modeling We provide the following computer code and programs: Matlab classes and utility functions for calculating...
    Tools
    BuildEM
    A Modular CMake-based System BuildEM is a modular CMake-based system that leverages CMake's ExternalProject to simplify and automate a complex build process. Its goal is to allow ...
    Tools
    Ctrax
    An open-source, freely available, machine vision program Ctrax was designed to allow high-throughput, quantitative analysis of behavior in freely moving flies. Our primary goal in this...
    Tools
    DataPro Electrophysiology Data Acquisition Software for Instrutech A-to-D Hardware
    DataPro DataPro is a program for electrophysiology data acquisition using Instrutech A-to-D hardware, primarily geared towards trial-based acquisition.  It allows easy configuration...
    Tools
    Efficient processing and analysis of large-scale light-sheet microscopy data
    Light-sheet microscopy is a powerful method for imaging the development and function of complex biological systems at high spatiotemporal resolution and over long time scales. Such experiments...
    Tools
    Ephus
    About the Innovation Ephus collects small programs that work together harmoniously to support electrophysiology, LSPS, and other applications. For an overview, see Suter, O'Connor, et...
    Tools
    Fast and robust optical flow for time-lapse microscopy using super-voxels
    Optical flow is a key method used for quantitative motion estimation of biological structures in light microscopy. It has also been used as a key module in segmentation and tracking systems and...
    Tools
    Fast, accurate reconstruction of cell lineages from large-scale fluorescence microscopy data
    The comprehensive reconstruction of cell lineages in complex multicellular organisms is a central goal of developmental biology. We present an open-source computational framework for the...
    Tools
    Fiji Cell Counter
    A structured process for the manual count of particles (e.g., cell bodies) in 2D and 3D images of any kind with a graphical mark-up in the image. For flexibility reasons, this tool was implemented...
    Tools
    FlyFizz: Tools to Study Drosophila Brain Physiology
    FlyFizz is an evolving webspace dedicated to enabling the exchange of information relating to one growing subfield of Drosophila brain physiology: understanding how neural circuits generate...