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http://www.commontk.org/

Software to support biomedical image computing.

Proper citation: CTK (RRID:SCR_024002) Copy   

•   Source: SciCrunch Registry

https://github.com/wdecoster/nanolyse

Software package to remove reads mapping to the lambda phage genome from a fastq file.

Proper citation: NanoLyse (RRID:SCR_024125) Copy   

•   Source: SciCrunch Registry

https://github.com/mtholder/ncl

Software C++ class library for interpreting data files in NEXUS format. NEXUS Class Library software package is collection of C++ classes designed to simplify interpreting data files written in the NEXUS format used by many computer programs for phylogenetic analyses.NEXUS format allows different programs to share the same data files, even though none of the programs can interpret all of the data stored.

Proper citation: libncl (RRID:SCR_024080) Copy   

•   Source: SciCrunch Registry

https://github.com/kdm9/libqes

Software C library with bioinformatic focus optimised for speed and clean API.

Proper citation: libqes (RRID:SCR_024083) Copy   

•   Source: SciCrunch Registry

https://neurobridges.org/

Platform for data discovery to enhance the reuse of clinical neuroscience and neuroimaging data. Provides NeuroBridge ontology, and combines machine learning with ontology based search of both neuroimaging repositories like XNAT databases and open access full text journals such as PubMed Central. Connects researchers with potential neuroimaging data, by searching text of papers describing neuroimaging studies that contain information on neuroimaging data.

Proper citation: NeuroBridge (RRID:SCR_023703) Copy   

•   Source: SciCrunch Registry

https://www.cia.gov/the-world-factbook/about/

Presents basic realities about world in which we live in and is one of the U.S. Government’s most accessed publications. Provides basic intelligence on history, people, government, economy, energy, geography, environment, communications, transportation, military, terrorism, and transnational issues for 266 world entities.

Proper citation: The World Factbook (RRID:SCR_023548) Copy   

•   Source: SciCrunch Registry

http://fair.dei.unipd.it/software/

Software platform for integration of imaging data and Allen Human Brain Atlas mRNA data. MENGA investigates correlation patterns between various imaging modalities and gene expression profiles based on the Allen Brain Atlas in order to create comprehensive, integrated data platform.

Proper citation: Multimodal Environment for Neuroimaging and Genomic Analysis (RRID:SCR_023822) Copy   

•   Source: SciCrunch Registry

https://github.com/toddy15/medicalterms

Software package to create specialized dictionaries for medical terms used in various languages.German medical dictionary words.

Proper citation: medicalterms (RRID:SCR_024117) Copy   

•   Source: SciCrunch Registry

https://github.com/LabTranslationalArchitectomics/RiboWaltz

Software R package for calculation of optimal P-site offsets, diagnostic analysis and visual inspection of ribosome profiling data. Works for read alignments based on transcript coordinates.

Proper citation: riboWaltz (RRID:SCR_016948) Copy   

•   Source: SciCrunch Registry

https://www.apple.com/numbers/

Software tool to create spreadsheets that include tables and images. You can use Apple Pencil on your iPad to add diagrams and colorful illustrations.

Proper citation: Numbers (RRID:SCR_016950) Copy   

•   Source: SciCrunch Registry

https://github.com/tarokiritani/WhiskerTracking

ImageJ plugins and macros for whisker tracking. Set of Fiji plugins and macros for tracking a single whisker.

Proper citation: Whisker tracking macro (RRID:SCR_016953) Copy   

•   Source: SciCrunch Registry

https://affinity.serif.com/en-us/photo/

Software tool for professional photo editing.

Proper citation: Affinity Photo (RRID:SCR_016951) Copy   

•   Source: SciCrunch Registry

http://sciencedynamics.data4good.io

Portal for Science Dynamics projects with open source framework to provide way to query datasets. Code framework, including tutorials for project, titled Over Optimization of Academic Publishing Metrics Observing Goodhart Law in Action, to interactively explore and understand how various properties of journals have changed over time. Datasets, software implementations, code tutorials and interactive web interface for investigating studied networks.

Proper citation: Science Dynamics (RRID:SCR_016958) Copy   

•   Source: SciCrunch Registry

https://www.olympus-global.com/technology/museum/micro/2004/

FV1000 confocal laser scanning biological microscope features twin scan system which enables spectroscopy of living intercellular contents and analysis of objects down to a 2nm wavelength resolution. Image size is increased to 4096x4096 pixels.

Proper citation: Olympus: FV1000 Confocal Microscope (RRID:SCR_016840) Copy   

•   Source: SciCrunch Registry

https://www.leicabiosystems.com/us/histology-equipment/cryostats/leica-cm3050-s/

Instrument designed for cryosectioning in biomedical, neuro-anatomical and pharmaceutical research.

Proper citation: Leica: CM3050 S Research Cryostat (RRID:SCR_016844) Copy   

•   Source: SciCrunch Registry

https://www.btxonline.com/products/electroporation-systems/ecm-830-square-wave-electroporation-system.html

ECM 830 is a square wave pulse generator designed for in vitro and in vivo applications for gene, drug and protein delivery for mammalian cells, zebra fish tissue and embryos, nuclear transfer, embryo manipulation, plant protoplast and basic bacteria and yeast transformations. Used in ECM 830 SQUARE WAVE ELECTROPORATION SYSTEM.

Proper citation: HBio: Multichallel Systems: Electro Square Porator ECM 830, BTX (RRID:SCR_016841) Copy   

•   Source: SciCrunch Registry

https://pharos.nih.gov/

Program to improve understanding of properties and functions of proteins that are currently unannotated within three most commonly drug protein families: targeted G-protein coupled receptors, ion channels, and protein kinases. Includes Data and Resource Generating Centers (DRGC), Knowledge Management Center (KMC), and Resource Dissemination and Outreach Center (RDOC).

Proper citation: Illuminating the Druggable Genome (RRID:SCR_016924) Copy   

•   Source: SciCrunch Registry

https://plusconsortium.umn.edu

Research consortium from many different fields to plan, perform and analyze the studies that are needed to help researchers conduct future prevention and intervention for Lower Urinary Tract Symptoms (LUTS) in women.

Proper citation: Prevention of Lower Urinary Tract Symptoms (RRID:SCR_016923) Copy   

•   Source: SciCrunch Registry

https://commonfund.nih.gov/hubmap

Project to facilitate research on single cells within tissues by supporting data generation and technology development to explore the relationship between cellular organization and function, as well as variability in normal tissue organization at the level of individual cells. Framework for functional mapping the human body with cellular resolution.Designed to support diverse spatial and non-spatial omics and imaging data types and to integrate with a wide range of analysis workflows.

Proper citation: The Human BioMolecular Atlas Program (RRID:SCR_016922) Copy   

•   Source: SciCrunch Registry

http://dee2.io/

Software tool as a repository of uniformly processed RNA-seq data mined from public data obtained from NCBI Short Read Archive . DEE2 consists of three parts: Webserver where end-users can search for and obtain data-sets of interest, Pipeline that can download and process SRA data as well as users own fastq files, Back-end that collects, filters and organises data provided by contributing worker nodes.

Proper citation: Digital Expression Explorer 2 Project (RRID:SCR_016929) Copy   

•   Source: SciCrunch Registry