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https://rewireneuro.com/product/pipsqueak/

Software image analysis tool as older ImageJ/Fiji plugin version.

Proper citation: Pipsqueak AI (RRID:SCR_022149) Copy   

•   Source: SciCrunch Registry

https://github.com/Kingsford-Group/kourami

Software graph guided assembly for novel human leukocyte antigen allele discovery. Graph guided assembly for HLA haplotypes covering typing exons using high coverage whole genome sequencing data.Implemented in Java and supported on Linux and Mac OS X.

Proper citation: Kourami (RRID:SCR_022280) Copy   

•   Source: SciCrunch Registry

https://opencell.czbiohub.org/

Proteome scale collection of protein localization and interaction measurements in human cells. Proteome scale endogenous tagging enables cartography of human cellular organization.

Proper citation: OpenCell (RRID:SCR_021870) Copy   

•   Source: SciCrunch Registry

https://isamplesorg.github.io/home/

Project to align physical sample identifiers. Used to design, develop, and promote service infrastructure to uniquely, consistently, and conveniently identify material samples, record metadata about them, and persistently link them to other samples and derived digital content, including images, data, and publications.

Proper citation: iSamples (RRID:SCR_021750) Copy   

•   Source: SciCrunch Registry

https://github.com/RabadanLab/arcasHLA

Software tool for high resolution HLA typing from RNAseq. Fast and accurate in silico inference of HLA genotypes from RNA-seq.

Proper citation: arcasHLA (RRID:SCR_022286) Copy   

•   Source: SciCrunch Registry

https://www.kbase.us/

Data science platform for predicting and designing biological function. Platform to model plant and microbial physiology and community dynamics. Knowledge creation and discovery environment for biologists and bioinformaticians. Integrates variety of data and analysis tools from US Department of Energy and other public services into platform that leverages scalable computing infrastructure and performs systems biology analyses. Enables scientists to analyze their own data within context of public data and share findings across system.

Proper citation: KBase (RRID:SCR_022162) Copy   

•   Source: SciCrunch Registry

https://ccsp.hms.harvard.edu/

Center includes studies for responsiveness and resistance to anti cancer drugs. Committed to training students and postdocs, promoting junior faculty and ensuring that data and software are reproducible, reliable and publicly accessible. Member of National Cancer Institute’s Cancer Systems Biology Consortium.

Proper citation: Harvard Medical School Center for Cancer Systems Pharmacology (RRID:SCR_022831) Copy   

•   Source: SciCrunch Registry

https://www.turing.ac.uk/research/research-projects/turing-way-handbook-reproducible-data-science

Guide to reproducible data science to support students and academics as they develop their code, with aim of helping them produce work that will be regarded as gold standard examples of trustworthy and reusable research. Include training material on version control, analysis testing and open and transparent communication with future users.

Proper citation: Turing Way handbook for reproducible data science (RRID:SCR_021908) Copy   

•   Source: SciCrunch Registry

https://bcrj.org.br/

Collection as result of joint work of scientists, technicians and students from Federal University of Rio de Janeiro and Technical-Scientific Association Paul Ehrlich. Center of reference and excellence in cell culture in Brazil and in our continent. Collection of human and animal cells that operates as service provider in Brazil and is the largest in South America.

Proper citation: Rio de Janeiro Cell Bank (RRID:SCR_023181) Copy   

•   Source: SciCrunch Registry

https://catalog.bcrc.firdi.org.tw/

Systematic and service oriented BioResource Center in Asia. Member of World Federation for Culture Collections from 1984 until now. BCRC is the first BRC certified by international organization of ISO quality system. Approved by Taiwan Biodiversity Information Facility.

Proper citation: Taiwan Bioresource Collection and Research Center (RRID:SCR_023180) Copy   

•   Source: SciCrunch Registry

https://github.com/mourisl/Rascaf

Software tool for scaffolding with RNA-seq read alignments. Used for improving genome assembly with RNA sequencing data.

Proper citation: Rascaf (RRID:SCR_022014) Copy   

•   Source: SciCrunch Registry

https://finngen.gitbook.io/documentation/

Public private partnership combining genotype data from Finnish biobanks and digital health record data from Finnish health registries. Provides opportunity to study genetic variation in relation to disease trajectories in isolated population.

Proper citation: FinnGen (RRID:SCR_022254) Copy   

•   Source: SciCrunch Registry

http://kcb.kiz.cas.cn/ml/

Cell Bank provides high quality resources and services including cell lines/tissues/DNA samples; cell culture training/trouble-shooting; cell culture/genetic research equipment; cell line karyotype analysis; STR/mycoplasma contamination detection; chromosome painting; cell line preservation.Cell Bank is branch of National Platform of Experimental Cell Resources for Science and Technology, Wildlife Resource Bank of the Chinese Academy of Sciences, the China Germplasm Bank of Wild Species, and also affiliated with Institute’s State Key Laboratory of Genetic Resources and Evolution.

Proper citation: Kunming Wild Animal Cell Bank (RRID:SCR_023188) Copy   

•   Source: SciCrunch Registry

https://cellbank.nibiohn.go.jp/english/

Collection of various human and animal culture cells including cancer and genetically modified cells. Cell resources are distributed to researchers across Japan and around the world. These cells are comprehensively qualified by testing microbial contamination, virus contamination and cross culture contamination. Some cells are characterized by karyotyping and/or cell surface markers. In collaboration with other major cell banks in the world, we are developing methods for cell culturing and quality control in order to support fundamental research on medical of pharmaceutical sciences.

Proper citation: Japanese Collection of Research Bioresources Cell Bank (RRID:SCR_023187) Copy   

•   Source: SciCrunch Registry

https://www.fdilab.org/toolsservices

Integrated data set and analytics platform combining Research Resource Identifiers (RRIDs), text mining and data aggregation.

Proper citation: Resource Information Network (RRID:SCR_023186) Copy   

•   Source: SciCrunch Registry

http://meadows-research.com

Online behavioral experiment platform.

Proper citation: Meadows (RRID:SCR_023218) Copy   

•   Source: SciCrunch Registry

https://edspace.american.edu/openbehavior/project/ratcave/

Portal provides open source, cross platform Python library that adds 3D stimulus support to all OpenGL based 2D Python stimulus libraries. Ratcave comes with resources including basic 3D object primitives and wide range of 3D light effects. Intuitive object oriented interface allows for all objects, which include meshes, lights, and cameras, can be repositioned, rotated, and scaled.

Proper citation: Ratcave project (RRID:SCR_021555) Copy   

•   Source: SciCrunch Registry

https://app.pennsieve.io

Platform to manage and curate large scientific datasets. Used for scientific data management and analysis.Provides advanced functionality to organize files and complex metadata describing datasets and allows users to interact, search, and analyze these data through web application or programmatically using Python client. Provides end-to-end solution for publishing datasets through Blackfynn Discover, assigning DOIs and ensuring that published data becomes available to larger academic community in sustainable and FAIR manner.

Proper citation: Pennsieve Data Management Platform (RRID:SCR_021677) Copy   

•   Source: SciCrunch Registry

https://scijava.org/

Collection of foundational software libraries, upon which ImageJ2 and Fiji are built. It is a collaboration of projects providing software for scientific computing in effort to cooperate and reuse code.

Proper citation: scijava (RRID:SCR_023335) Copy   

•   Source: SciCrunch Registry

https://covidcg.org/?tab=home

Open browser to inform therapeutics development for tracking SARS-CoV-2 single nucleotide variations, lineages, and clades using virus genomes on GISAID database while filtering by location, date, gene, and mutation of interest. can Provides information on which virus mutations are present in area during specific period by processing data on mutations found in viral genetic material collected worldwide from hundreds of thousands of people with COVID-19, which are hosted in existing online database.

Proper citation: COVID CG (RRID:SCR_022266) Copy   

•   Source: SciCrunch Registry