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https://www.eneuro.org/content/10/5/ENEURO.0127-22.2023

Open source, adaptable tracking system for multiple rodents. Scalable and customizable system for tracking and behavior assessment consists of Raspberry Pi based video and RFID acquisition. Maximum of six rodents of any coat color can be tracked simultaneously in any user defined arena with few restrictions. For pose estimation and travel trajectory analysis, PyMouseTracks supports interfacing with open source packages such as DeepLabCut and Traja.

Proper citation: PyMouseTracks (RRID:SCR_024453) Copy   

•   Source: SciCrunch Registry

http://datamares.org

Open source, and interactive platform to resolve trans disciplinary problems related to coastal and marine ecosystem. Data sharing and science communication portal holds amounts of fishery, reef, and mangrove data pertaining to Gulf of California and Mexico specific oceans, and delivers this information in interactive and easily digestible manner. Consistently expands library of datasets while improving functionality and overall usability of the platform. Facilitate access to scientific knowledge and data to promote transparency, education, and deeper understanding of Mexico’s ecosystems and their biodiversity to bridge gap between science and design process of conservation and resource management programs.

Proper citation: DataMares (RRID:SCR_024575) Copy   

•   Source: SciCrunch Registry

https://codemeta.github.io/codemeta-generator/

Web application that creates CodeMeta files.

Proper citation: CodeMeta Generator (RRID:SCR_024601) Copy   

•   Source: SciCrunch Registry

https://www.softwareheritage.org/

Software Heritage provides service for archiving and referencing historical and contemporary software with focus on human readable source code. The site was unveiled in 2016 by Inria and is supported by UNESCO. The project itself is structured as non‑profit multi‑stakeholder initiative.

Proper citation: Software Heritage (RRID:SCR_024602) Copy   

•   Source: SciCrunch Registry

https://proplot.readthedocs.io/en/stable/

Software tool as succinct matplotlib wrapper for making publication quality graphics.

Proper citation: ProPlot (RRID:SCR_024584) Copy   

•   Source: SciCrunch Registry

https://www.photometrics.com/products/ocular

Photometrics acquisition software to capture, save and publish images and movies. Allows users of color and monochrome cameras to capture high quality images and videos from their microscope or lens system.

Proper citation: Ocular (RRID:SCR_024467) Copy   

•   Source: SciCrunch Registry

https://ebrc.org/

Non-profit, public-private partnership dedicated to bringing together inclusive community committed to advancing engineering biology to address national and global needs. We showcase cutting-edge research in engineering biology, identify pressing challenges and opportunities in research and application, articulate compelling research roadmaps and programs to address them, and provide timely access to other key developments in engineering biology.

Proper citation: Engineering Biology Research Consortium (RRID:SCR_024578) Copy   

•   Source: SciCrunch Registry

https://www.eneuro.org/content/10/8/ENEURO.0212-23.2023

Simple, lightweight, and low cost customizable multielectrode array for Local Field Potential recordings. Used to collect LFP data from different brain regions simultaneously in rats. Can be modified to record single unit and multiunit activity in addition to LFP activity using both wired and wireless neural data acquisition systems.

Proper citation: Customizable Multielectrode Array (RRID:SCR_024551) Copy   

•   Source: SciCrunch Registry

https://seismo.berkeley.edu/

Acts as part of statewide earthquake monitoring system, the California Integrated Seismic Network. Conducts essential research on earthquakes and solid earth processes while collecting and delivering high quality geophysical data. Data from these geophysical networks are recorded digitally and are archived at the Northern California Earthquake Data Center, which is located at the Berkeley Seismological Lab.

Proper citation: Berkeley Seismological Laboratory (RRID:SCR_024552) Copy   

•   Source: SciCrunch Registry

https://sparrow-data.org/

Software for managing geochemical data created by individual geochronology laboratory. Designed for flexibility and extensibility, so that it can be tailored to the needs of individual analytical labs that manage wide variety of data. Database set up for metadata tracking.

Proper citation: Sparrow-data (RRID:SCR_024432) Copy   

•   Source: SciCrunch Registry

https://biocodecommons.org/

Platform provides resources for genomic observations from collection to analysis and publication. Works with standards community to ensure clear vocabularies and useful ontologies for biological resources and related assets. Biocode Commons is also collaborating on development of Biological Collections Ontology, working to better integrate ontologies, vocabularies, and relevant standards that are related to BCO.

Proper citation: Biocode Commons (RRID:SCR_024553) Copy   

•   Source: SciCrunch Registry

https://www.olympus-lifescience.com/en/downloads/detail-iframe/?0[downloads][id]=847249651

Software for image processing. Reads data captured by FV1200/FV1000/FV500/FV300 microscopes. Images saved with FV file format (OIF, OIB, FV Multi-Tiff) can be read.

Proper citation: Olympus FV10-ASW Viewer (RRID:SCR_024433) Copy   

•   Source: SciCrunch Registry

https://xdd.wisc.edu/

Software digital library and cyberinfrastructure facilitating discovery and utilization of data and knowledge in published documents.

Proper citation: XDD (RRID:SCR_024434) Copy   

•   Source: SciCrunch Registry

http://mpds.neist.res.in:8085/

Galaxy based disease specific web portal for drug discovery research of COVID-19. Open access disease specific drug discovery portal.

Proper citation: Molecular Property Diagnostic Suite Covid-19 (RRID:SCR_024545) Copy   

•   Source: SciCrunch Registry

https://prosite.expasy.org/scanprosite/

Web tool for detecting PROSITE signature matches in protein sequences.

Proper citation: ScanProsite (RRID:SCR_024425) Copy   

•   Source: SciCrunch Registry

https://github.com/STOmics/BatchEval

Software tool for evaluating batch effects in data integration. Tool to improve accuracy and reliability of experimental results. Used to evaluate batch effect of dataset integration and output comprehensive report.

Proper citation: BatchEval (RRID:SCR_024546) Copy   

•   Source: SciCrunch Registry

https://science.bostongene.com/kassandra/

Software bulk RNA-seq cellular deconvolution tool. Used for analysis of healthy tissue and tumor biopsies. Based on RNA-seq NGS data of biological sample, Kassandra predicts cellular composition including stromal and immune elements by analyzing gene expression.

Proper citation: Kassandra (RRID:SCR_024548) Copy   

•   Source: SciCrunch Registry

https://github.com/EwellNeuroLab?tab=repositories

Low cost platform for multianimal chronic Local Field Potential video monitoring with Graphical User Interface for seizure detection and behavioral scoring. Enables chronic monitoring of several animals simultaneously, synchronizes bilateral local field potential and video streams in real time, and parses recorded data into manageable file sizes. Hardware solution leverages Intan and Open Ephys acquisition systems and software solution is implemented in Bonsai. Data are synchronized and parsed in Bonsai, allowing for flexibility and scalability of up to 128 channels per animal. The use of Intan adapter board for LFP video recordings allows compatibility with large variety of recording devices. Custom made electrodes and cables were components for the chronic LFP recordings. Used as acquisition system for long term video neurophysiology recordings.

Proper citation: LFP Monitoring (RRID:SCR_024428) Copy   

•   Source: SciCrunch Registry

https://de.caeonline.com/buy/lab-equipment-and-accessories/tecan-infinite-m200/9076657

TECAN Infinite M200 is laboratory device and accessory for multiplex luminescence and fluorescence applications. Device features automated robotic arm for dispensing samples or reagents onto cuvettes or microplates, as well as range of high speed and throughput sample injection capabilities. Infinite M200 is integrated with TECAN's proven laser-based multi-channel detection technology, to measure multiple biological responses simultaneously. System features graphical user interface to configure instrument for single or multiple sample injection processes. Accommodates range of different cuvette and microplate vessels, suitable for both 1.5ml and 0.2ml tubes as well as plates up to 384 wells. Multichannel optical detector can detect up to four different signals in parallel, with wide range of detection wavelengths. Designed for high-throughput applications with sensitive fluorescence and luminescence. Features automated sample injection unit that enables hands-free operation of 96 or 1,536 up to eight-channel multipoint experiments, providing maximum flexibility. Comes with range of software, including intuitive data collection and analysis interface. Designed with automated calibration settings, providing reliable, accurate and reproducible results.

Proper citation: Tecan: Infinite M200 (RRID:SCR_024560) Copy   

•   Source: SciCrunch Registry

https://www.tecan.com/customer-news/tecan-granted-patent-for-revolutionary-nanoquant-plate-2117

Device designed for simultaneous measurement of multiple low volume samples. Consists of 16 precision manufactured quartz optics in user friendly format, offering precise, straightforward absorbance and fluorescence based measurements from sample volumes as low as 2 µl. Combined with Tecan’s Infinite series readers – the Infinite 200 PRO, Infinite F500 and Infinite M1000 PRO – the NanoQuant Plate provides solution for DNA or RNA quantification, allowing detection of concentrations down to 1 ng/µl for wide variety of applications.

Proper citation: Tecan: NanoQuantPlate (RRID:SCR_024561) Copy   

•   Source: SciCrunch Registry