Curator Dashboard

Software used for Bio-Rad imaging systems to acquire, quantitate, and analyze a variety of data. The software allows automatic configuration of imaging systems with appropriate filters, lasers, LEDs, and other illumination sources. It also contains tools for automated analysis of tests and assays such as 1-D electrophoretic gels, western blots, and colony counts.

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• SciCrunch
• 11 years ago - submitted by Jessica Cabotaje

A software program that allows the user to perform data acquistion, stimulation and analyses. Users do not need to know the programming language or a new protocol view. AcqKnowledge Software is compatible with MP150 Research Systems, MP36R Research Systems, and MRI and fMRI Setups. A variety of offline and online analysis tools allows users to customize data recordings and targeted analyses. The software can perform automated analysis routines, output a range of stimulus paradigms, and allows users to record from multiple hardware devices simultaneously.

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• SciCrunch
• 11 years ago - submitted by Gabrielle Pine

Software designed to provide an image analysis software solution for offline analysis of images, ideally for the analysis of images where image capture is not required. Available applications for MCID Analysis include gel/blot analysis, fluorescence microscopy, and stereology.

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• SciCrunch
• 11 years ago - submitted by Jessica Cabotaje

Software for browsing the image data acquired by Nikon C1 and a Nikon C1si system.

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• SciCrunch
• 11 years ago - submitted by Jessica Cabotaje

A sweep-based data acquisition and analysis software package. Its uses range from a simple storage oscilloscope to complex applications requiring stimulus generation, data capture, control of external equipment and custom analysis. A built-in script language automates tasks and provides additional tools for custom analyses and applications. Signal includes functions for specific application areas, including dynamic clamp, whole cell and patch clamp electrophysiology, and evoked response including control of magnetic and other stimulus devices. Video tutorials and a demo version of Signal is available on the main page.

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• SciCrunch
• 11 years ago - submitted by Jessica Cabotaje

Software which can automatically detect descriptor classes defined in the CDK QSAR descriptor dictionary. Groups of descriptors and individual descriptors can be selected for evaluation. Input can be SDF or SMI formats, while output can be a variety of delimited text formats, annotated SDF or ARFF. The software can also evaluate fingerprints. A summary overview of the available descriptors and their names are available on the website.

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• SciCrunch
• 11 years ago - submitted by Gergo Barta

An open-source cheminformatics and machine-learning toolkit that is useable from Java or Python. It includes a collection of standard cheminformatics functionality for molecule I/O, substructure searching, chemical reactions, coordinate generation (2D or 3D), fingerprinting, etc., as well as a high-performance database cartridge for working with molecules using the PostgreSQL database. Documentation is available on the main website.

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• SciCrunch
• 11 years ago - submitted by Gergo Barta

Software toolkit containing tools to render and canonicalize SMILES and manipulate MOL file and related formats, as well as structure fingerprinting.

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• SciCrunch
• 11 years ago - submitted by Gergo Barta

A software to calculate molecular descriptors and fingerprints. The descriptors and fingerprints are calculated using The Chemistry Development Kit with additional descriptors and fingerprints such as atom type electrotopological state descriptors, Crippen's logP and MR, extended topochemical atom (ETA) descriptors, and McGowan volume.

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• SciCrunch
• 11 years ago - submitted by Gergo Barta

Software which can acquire, analyze, manage, and share mass spectrometry data. MassLynx controls any Waters mass spectrometry system, from sample and solvent management components to mass spectrometer and auxiliary detectors. The software can acquire nominal mass, exact mass, MS/MS and exact mass MS/MS data. The software system also maintains and consolidates all user sample data. Optional Application Manager programs provide additional information for specific MS analyses and data., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025.

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• SciCrunch
• 11 years ago - submitted by Jessica Cabotaje

A suite of programs for recording and analyzing signals from intracellular electrophysiology experiments. A list of the latest software is available from the website. The programs work with common electrophysiological laboratory interface units, including: Cambridge Electronic Design 1401 / 1401plus / Micro1401 / Power 1401; Axon Instruments Digidata 1200 or 1320/22, 1440, 1550, 1550A; Instrutech ITC16 or ITC-18; National Instruments multifunction interface cards; Biologic VP500; Tecella patch clamps; and Heka EPC-9, EPC-10.

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• SciCrunch
• 11 years ago - submitted by Jessica Cabotaje

An ImageJ plugin used for analyzing 2D time-lapse images or stacks. The plugin can be used to add a predefined ROI (Auto ROI) through mouse clicks. After selecting the object to be defined, an ROI is added on the image and in ROI Manager.

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• SciCrunch
• 11 years ago - submitted by Jessica Cabotaje

A software toolbox which provides MATLAB functions, apps, and a Simulink block for analyzing, designing, and simulating fuzzy logic systems. Fuzzy Logic Toolbox allows users to model complex system behaviors using simple logic rules, and then implement these rules in a user-designed fuzzy inference system. Functions are provided for many common methods, including fuzzy clustering and adaptive neurofuzzy learning. The toolbox can be used as a stand-alone fuzzy inference engine or in connection with Simulink. Different versions of the software are available for specific fuzzy inference systems.

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• SciCrunch
• 11 years ago - submitted by Jessica Cabotaje

BrainVoyager QX is a highly optimized and user friendly software package for the analysis and visualization of functional and structural magnetic resonance imaging data sets. The program runs on all major computer platforms including Windows (XP/7/8/8.1), Linux (e.g. RedHat, SUSE) and Mac OS X (10.8 or higher).

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• SciCrunch
• 11 years ago - submitted by Jessica Cabotaje

Software tool for plasmid and sequence editing, annotating and drawing plasmid sequences. Used to view circular or linear maps of DNA sequences. Users can perform virtual digests whereby they select predefined DNA ladder, or specify their own, and visualize theoretical DNA fragments. Used to highlight restriction sites in editing window, accurately reflect Dam/Dcm blocking of enzyme sites, highlighting and drawing graphic maps using feature annotations from genbank and embl files, highlighting text using pre-defined and custom feature libraries, and directly BLASTing selected sequence at NCBI or Wormbase. Runs across Windows, OS X, and Linux/Unix.

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• SciCrunch
• 11 years ago - submitted by Jessica Cabotaje

Software suite of sequence analysis and design tools that help manage, view, analyze, transform, share, and publicize various types of molecular biology data within one analysis environment. Users can analyze and compare sequences, design cloning and other vector related experiments, and curate and organize data and collections. Different classes for different user and experimental focuses are available.

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• SciCrunch
• 11 years ago - submitted by Jessica Cabotaje

Project portal dedicated to understand animal and machine intelligence and repository of data and tools. Suite of tools to analyze and graph imaging data. Image and data repository for large, publicly available neuro-specific data files and images. Contains tools for analytics, databases, cloud computing, and Web-services applied to both big neuroimages and big neurographs.

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• SciCrunch
• 11 years ago - submitted by Anita Bandrowski

Neurosimulation software that links sophisticated model development with behavior. The software package provides a framework that can be expanded using standard KDE (K Desktop Environment) parts and plugins to incorporate a variety of different projects, like visual system, auditory system or memory system. KInNeSS contains two fully developed project environments: one for generic input and another for spatial navigation tasks. The option of creating a new project environment is provided for advanced users. A user manual and tutorials/examples are provided as part of documentation.

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• SciCrunch
• 11 years ago - submitted by Jamie Li

An event-based neuronal network simulator designed to handle large, complicated neuronal networks. The software is capable of creating realistic and accurate neuronal models in terms of neuronal dynamics and spike timing. ERNST is written in Java.

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• SciCrunch
• 11 years ago - submitted by Jamie Li

Simulation software which creates spiking cell models using either a time-driven strategy or an event-driven strategy based on look-up tables. EDLUT serves as a tool for studying the computational principles of neural systems to reveal how different functionalities of the brain and central nervous system are based on cell and topology properties.

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• SciCrunch
• 11 years ago - submitted by Jamie Li