Tools   Select Another Resource Report Type

https://www.drive5.com/piler/

Software tool for analyzing repetitive DNA found in genome sequences. Software package for identification and classification of genomic repeats. Used for identifying patterns of local alignments induced by certain classes of repeats.

Proper citation: PILER (RRID:SCR_017333) Copy   

•   Source: SciCrunch Registry
  

https://bonsai-rx.org/

Software event based framework for processing and controlling data streams. Visual language designed for making software systems that require rich and rapid interaction with external world.

Proper citation: Bonsai (RRID:SCR_017218) Copy   

•   Source: SciCrunch Registry
  

http://rna.urmc.rochester.edu/RNAstructureWeb/Servers/Predict1/Predict1.html

Web server for RNA and DNA secondary structure prediction and analysis. Software package as RNA folding prediction program.

Proper citation: RNAstructure (RRID:SCR_017216) Copy   

•   Source: SciCrunch Registry
  

http://kim.bio.upenn.edu/software/pivot.shtml

Software R package for interactive analysis and visualization of transcriptomics data. Operating systems are macOS, Linux, Windows.

Proper citation: PIVOT software (RRID:SCR_017210) Copy   

•   Source: SciCrunch Registry
  

https://github.com/BioInf-Wuerzburg/proovread

Software tool for PacBio hybrid error correction through iterative short read consensus.

Proper citation: Proovread (RRID:SCR_017331) Copy   

•   Source: SciCrunch Registry
  

https://syngoportal.org/

Evidence based, expert curated knowledge base for synapse. Universal reference for synapse research and online analysis platform for interpretation of omics data. Interactive knowledge base that accumulates available research about synapse biology using Gene Ontology annotations to novel ontology terms.

Proper citation: SynGO (RRID:SCR_017330) Copy   

•   Source: SciCrunch Registry
  

https://cran.r-project.org/web/packages/phangorn/index.html

Software R package for phylogenetic reconstruction and analysis. Used for estimation of phylogenetic trees and networks using Maximum Likelihood, Maximum Parsimony, distance methods and Hadamard conjugation. Allows to compare trees, models selection and offers visualizations for trees and split networks.

Proper citation: Phangorn (RRID:SCR_017302) Copy   

•   Source: SciCrunch Registry
  

https://www.beilstein-strenda-db.org/strenda/

Storage and search platform supported by Beilstein-Institut that incorporates STRENDA Guidelines. For authors who prepare manuscript containing functional enzymology data, STRENDA DB provides means to ensure that data sets are complete and valid before submitting them to journal.

Proper citation: STRENDA (RRID:SCR_017422) Copy   

•   Source: SciCrunch Registry
  

http://idr.openmicroscopy.org/about/

Public repository of reference image datasets from published scientific studies. Platform for publishing, mining and integrating bioimaging data, following FAIR principles and Euro-BioImaging/ELIXIR imaging strategy using OMERO and Bio-Formats open source software built by Open Microscopy Environment. Deployed on OpenStack cloud running on EMBL-EBI’s Embassy resource, it includes image data linked to independent studies from genetic, RNAi, chemical, localisation and geographic high content screens, super resolution microscopy, and digital pathology.

Proper citation: Image Data Resource (IDR) (RRID:SCR_017421) Copy   

•   Source: SciCrunch Registry
  

https://www.smir.ch/

Medical image repository to store medical research data.

Proper citation: SICAS Medical Image Repository (RRID:SCR_017420) Copy   

•   Source: SciCrunch Registry
  

https://beast.community/tempest

Software tool for investigating temporal signal and clocklikeness of molecular phylogenies. Used for visualization and analysis of temporally sampled sequence data to assess whether there is sufficient temporal signal in data to proceed with phylogenetic molecular clock analysis, and to identify sequences whose genetic divergence and sampling date are incongruent. Not available for downloading as of August 8, 2019.

Proper citation: TempEst (RRID:SCR_017304) Copy   

•   Source: SciCrunch Registry
  

https://www.ebi.ac.uk/eva/

Open access database of all types of genetic variation data from all species. Users can download data from any study, or submit their own data to archive. You can also query all variants by study, gene, chromosomal location or dbSNP identifier using our Variant Browser.

Proper citation: European Variation Archive (EVA) (RRID:SCR_017425) Copy   

•   Source: SciCrunch Registry
  

https://brainreader.net

Developer of medical software to offer image analysis technologies. Company in Denmark that provides medical image processing software to get quantifiable and accurate insight into brain.

Proper citation: Brainreader (RRID:SCR_017308) Copy   

•   Source: SciCrunch Registry
  

http://pcddb.cryst.bbk.ac.uk/home.php

Public repository for archiving circular dichroism spectroscopic data and associated bioinformatics and experimental metadata. For authors to deposit experimental data as well as detailed information on methods and calculations associated with published work. Includes links for each entry to bioinformatics databases. Data are freely available to accessors either as single files or as complete data bank downloads.

Proper citation: Protein Circular Dichroism Data Bank (PCDDB) (RRID:SCR_017428) Copy   

•   Source: SciCrunch Registry
  

https://www.spindustries.com/

Commercial organization located in Warminster, Pennsylvania, USA is manufacturer of specialty equipment, scientific glassware, laboratory and lab safety supplies, and home healthcare products serving pharmaceutical, biotechnology, educational, industrial, OEM, and commercial markets under market leading brand names. Products include pharmaceutical, scientific research, industrial, aeronautic, semiconductor and healthcare. Flagship brands are SP Scientific, SP Scienceware, and SP Ableware.

Proper citation: SP Industries (RRID:SCR_017368) Copy   

•   Source: SciCrunch Registry
  

https://www.oxinst.com/

Commercial organization located in Abingdon, United Kingdom for high technology products. Manufactures instruments for agriculture, astronomy, automotive, aerospace, bio-imaging, life science, chemical and catalysis, energy generation and storage, forensics, environmental industries, geology, metallurgy, pharmacy, photonics, polymers, quantum technology, data storage, and microelectronics. Products are divided into atom force microscopy, electron microscopy, deposition and etch tools, low temperature systems, optical imaging, nuclear magnetic resonance, MRI and CT servicing, Modular optical spectroscopy, and X-Ray.

Proper citation: Oxford Instruments (RRID:SCR_017366) Copy   

•   Source: SciCrunch Registry
  

https://www.adobe.com/platform/

Software platform used for production of animations, rich Internet applications, desktop applications, mobile applications, mobile games and embedded web browser video players. Adobe will stop updating and distributing Flash Player in 2020. For existing Flash content, eventual, final version of Flash plug-in will still work after 2020, and Adobe will work with browser makers to ensure security vulnerabilities are patched.

Proper citation: Adobe Flash (RRID:SCR_017258) Copy   

•   Source: SciCrunch Registry
  

https://medicine.ecu.edu/core-imaging/wp-content/pv-uploads/sites/288/2019/10/lsm-700-quick-guide.pdf

Laser scanning confocal microscope designed for high-quality imaging of biological and material samples. Member of the seventh generation of confocal microscopes from Carl Zeiss. Point scanning confocal microscope., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025.

Proper citation: Zeiss: LSM 700 microscope (RRID:SCR_017377) Copy   

•   Source: SciCrunch Registry
  

https://www.avingtrans.plc.uk/

Machine industry company located in Chatteris, Cambridgeshire, United Kingdom and engaged in provision of highly engineered components, systems and services to energy, medical and traffic. Has investment in Energy Divisions, Medical Division, and Aerospace Industries.

Proper citation: Avingtrans PLC (RRID:SCR_017371) Copy   

•   Source: SciCrunch Registry
  

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https://biit.cs.ut.ee/clustvis/

Web user interface for visualizing clustering of multivariate data. Web server allows users to upload their own data and create Principal Component Analysis plots and heatmaps.

Proper citation: ClustVis (RRID:SCR_017133) Copy   

•   Source: SciCrunch Registry