Tools   Select Another Resource Report Type

https://www.nitrc.org/projects/qcalign

Software tool to detect regions that are affected by tissue damage, labelling defects, artifacts or errors in image acquisition, regions that are poorly registered, or where registration cannot be verified. Makes it easier for the user to explore the atlas hierarchy and decide on customized hierarchy level for investigation. QCAlign was developed to support QUINT workflow which supports spatial analysis of labelling in series of brain sections from mouse and rat based on registration to reference atlas.

Proper citation: QCAlign (RRID:SCR_023088) Copy   

•   Source: SciCrunch Registry

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

Portal provides MouseMove software system used to analyze Open Field behavior of mice after experimental stroke to show reduced locomotor activity and to quantify laterality deficits. System is used in combination with open source program ImageJ and MTrack2 plugin to analyze pre recorded Open Field test video. System has two downloadable components, ImageJ macro and separate program with custom built MouseMove GUI. ImageJ is used to subtract background video from experiment and create image of animals total trajectory. MouseMove GUI then completes detailed analysis of movement patterns, measuring fractional time spent stationary, distance traveled, speed mean and various details of laterality.

Proper citation: MouseMove project (RRID:SCR_021581) Copy   

•   Source: SciCrunch Registry

https://www.cis.jhu.edu/~younes/CA.html

Web portal that explains technique of Diffeomorphic Mapping and Shape Analysis.

Proper citation: Generative Diffeomorphic Mapping (RRID:SCR_022825) Copy   

•   Source: SciCrunch Registry

http://www.psc.edu/

Joint computational research center with Carnegie Mellon University and University of Pittsburgh. Provides university, government and industrial researchers with access to several systems for high performance computing, communications and data storage available to scientists and engineers nationwide for unclassified research.

Proper citation: Pittsburgh Supercomputing Center (RRID:SCR_022823) Copy   

•   Source: SciCrunch Registry

https://github.com/vesselman/SparkAn

Software tool for custom calcium imaging analysis.

Proper citation: SparkAn (RRID:SCR_022028) Copy   

•   Source: SciCrunch Registry

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