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SciCrunch Registry is a curated repository of scientific resources, with a focus on biomedical resources, including tools, databases, and core facilities - visit SciCrunch to register your resource.
https://github.com/calico/borzoi
Software package to access the Borzoi models, which are convolutional neural networks trained to predict RNA-seq coverage at 32bp resolution given 524kb input sequences.
Proper citation: Borzoi (RRID:SCR_026619) Copy
http://www.salk.edu/science/core-facilities/gene-transfer-targeting-and-therapeutics-core/
Core facility that provides consultation on the use of viral vector technologies as well as custom design and production services for multiple vector types. The GT3 facilitates the use of these research tools by Salk researchers and others across diverse fields of study such as systems neuroscience, stem cell biology, metabolism, ageing, cancer biology and gene therapy. The GT3 core is a designated Cancer Center Council (C3) core facility. Cancer Center members from participating C3 institutes have preferential rates.
Proper citation: Salk Institute Gene Transfer Targeting and Therapeutics Viral Vector Core Facility (RRID:SCR_014847) Copy
https://www.med.unc.edu/neuroscience/core-facilities/neuro-microscopy/
Microscopy Core for high resolution imaging and aims to make this technology accessible to neuroscientists and other scientific researchers.Provides advanced systems for cellular and molecular imaging of in vitro and in vivo samples, implements new imaging technologies, particularly related to real time and tissue clearing based imaging of neurodevelopment and neural functions, offers training, consultation, data analysis, image processing, and centralized technical expertise.
Proper citation: University of North Carolina at Chapel Hill School of Medicine Neuroscience Microscopy Core Facility (RRID:SCR_019060) Copy
https://github.com/TonnesenLab/Diffusion-Model/
Software code for simulating diffusion in brain extracellular space images.
Proper citation: Diffusion-Model (RRID:SCR_027942) Copy
https://github.com/NeurodataWithoutBorders/aqnwb
Software C++ API for acquiring neurophysiological data directly into the NWB (Neurodata Without Borders) format. Our goal is to provide a lightweight API to integrate with existing acquisition systems.
Proper citation: AqNWB (RRID:SCR_028050) Copy
https://github.com/GabrielHoffman/dreamlet
Software R package enables differential expression analysis on multi-sample single cell datasets using linear (mixed) models with precision weights.
Proper citation: dreamlet (RRID:SCR_028168) Copy
https://github.com/meganhuibregtse/peri-code
Software R code to apply Stages of Reproductive Aging Workshop + 10 stages to prospectively collected vaginal bleeding data among a cohort of Black women aged 40–55 years. Used to apply STRAW+10 stages to prospectively tracked menstrual bleeding data in a longitudinal cohort study of perimenopausal women.
Proper citation: PERI: Prospective Evaluation of Reproductive aging Indicators (RRID:SCR_028698) Copy
https://cells-test.gi.ucsc.edu/cytoverse/
Web application to map single-cell RNA data into AI foundation model spaces. Lets search millions of reference cells and view cell types locally without uploading private data or needing powerful cloud servers. Using ONNX model deployment and compressed IVFPQ indexing, it annotates local datasets against a 23-million-cell reference without server computation, installation, or data upload, and shares embeddings as lightweight files, enabling private, interactive, and collaborative single-cell analysis.
Proper citation: CytoVerse (RRID:SCR_028854) Copy
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