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https://bioconductor.org/packages/SNPRelate/

Software R package as parallel computing toolset for relatedness and principal component analysis of SNP data.

Proper citation: SNPRelate (RRID:SCR_022719) Copy   

•   Source: SciCrunch Registry

https://github.com/axondeepseg/axondeepseg

Open source software tool for automatic axon and myelin segmentation from microscopy data using convolutional neural networks.

Proper citation: AxonDeepSeg (RRID:SCR_022531) Copy   

•   Source: SciCrunch Registry

http://rrwick.github.io/Bandage/

Software tool for visualising de novo assembly graphs. By displaying connections which are not present in contigs file, opens up new possibilities for analysing de novo assemblies. Used for interactive visualization of de novo genome assemblies.

Proper citation: Bandage (RRID:SCR_022772) Copy   

•   Source: SciCrunch Registry

https://github.com/xfengnefx/hifiasm-meta

Software tool as metagenome assembler that exploits high accuracy of recent data. De novo metagenome assembler, based on haplotype resolved de novo assembler for PacBio Hifi reads. Workflow consists of optional read selection, sequencing error correction, read overlapping, string graph construction and graph cleaning.

Proper citation: hifiasm-meta (RRID:SCR_022771) Copy   

•   Source: SciCrunch Registry

https://github.com/kimjh0107/22CellMorphologyLabelingTool

Software tool for image quality. Used for labeling quality of images and labeling center point of 3D RI images. Used to mange 3D RI cell images taken from holotomography.

Proper citation: Cell Morphology Labelling Tool (RRID:SCR_022770) Copy   

•   Source: SciCrunch Registry

https://heartbeat-med.com/de/#gfllg4kn3jpeq2gzkxm1rc

Provider of measurement and analysis of Patient Reported Outcomes and their linkage to clinical data. By embedding resulting insights into individual treatments and care management, enables Value based Healthcare initiatives. Software company works from Berlin, Cologne and London on product development and supports centers, registries and research projects. Patient-Reported Outcomes are collected directly from patients in form of standardized questionnaires and provide insights into treatment effects and health related quality of life. Automatically linked with clinical observations, data based decision making basis is created for medical, therapeutic, and economic issues.

Proper citation: Heartbeat Medical Solutions GmbH (RRID:SCR_022527) Copy   

•   Source: SciCrunch Registry

https://huttenhower.sph.harvard.edu/picrust/

Software for predicting functional abundances based only on marker gene sequences.Used for prediction of metagenome functions. Contains updated and larger database of gene families and reference genomes, provides interoperability with any operational taxonomic unit (OTU)-picking or denoising algorithm, and enables phenotype predictions. Allows addition of custom reference databases.

Proper citation: PICRUSt2 (RRID:SCR_022647) Copy   

•   Source: SciCrunch Registry

https://github.com/sarastokes/AOData

Software tool as framework for adaptive optics data analysis. Object oriented framework for organizing data, metadata and code related to adaptive optics experiment.

Proper citation: AOData (RRID:SCR_022767) Copy   

•   Source: SciCrunch Registry

https://microbiomedb.org/

Systems biology platform for integrating, mining and analyzing microbiome experiments.Data discovery and analysis web based resource that empowers researchers to fully leverage experimental variables to interrogate microbiome datasets. Used to mine complex microbiome and metagenome studies.

Proper citation: MicrobiomeDB (RRID:SCR_022766) Copy   

•   Source: SciCrunch Registry

https://napari.org/

Multi dimensional image viewer for Python. Used for browsing, annotating, and analyzing large multi dimensional images. Can be coupled to machine learning and image analysis tools enabling more user friendly automated analysis.

Proper citation: Napari (RRID:SCR_022765) Copy   

•   Source: SciCrunch Registry

https://www.cincinnatichildrens.org/?utm_source=local&utm_medium=organic&utm_campaign=profile_listing&utm_content=website

Nonprofit academic medical center established in 1883. One of the oldest and most distinguished pediatric hospitals in the United States. Affiliated with the University of Cincinnati Academic Health Center.

Proper citation: Cincinnati Children's Hospital Medical Center; Cincinnati; Ohio (RRID:SCR_022643) Copy   

•   Source: SciCrunch Registry

https://hugo.health/

Platform for individuals who want to make their own data available for research. Used by people to join network with others who wish to contribute to vital research in partnership with and alongside leading scientists. Personal tool for saving and displaying medical information.

Proper citation: Hugo Data (RRID:SCR_022763) Copy   

•   Source: SciCrunch Registry

https://www.nicd.ac.za/

National public health institute for South Africa, providing disease surveillance, specialised diagnostic services, outbreak response, public health research and capacity building to support the government’s response to communicable disease threats.

Proper citation: National Institute for Communicable Diseases; South Africa (RRID:SCR_022662) Copy   

•   Source: SciCrunch Registry

https://www.wpiinc.com/var-2273-constant-current-stimulus-isolator

Automated bipolar pulsing for zero net charge on biological preparations. Includes Constant current, Unipolar and bipolar stimulation modes, Built-in non-compliance alarm, Optically isolated input Standard TTL triggering, DC test mode. Powered by 9 V alkaline or rechargeable batteries.

Proper citation: WPI: Constant Current Stimulus Isolator (RRID:SCR_022660) Copy   

•   Source: SciCrunch Registry

https://www.fluidigm.com/products-services/instruments/biomark-hd

Automated, high performance PCR/qPCR system that uses microfluidics technology to process samples at nanoliter scale volumes for gene expression, genotyping, sample identification, copy number variation analysis and digital PCR. With wide range of integrated fluidic circuit (IFC) formats available, scaling from mid to high throughput on single system.

Proper citation: Standard BioTools: Biomark HD system (RRID:SCR_022658) Copy   

•   Source: SciCrunch Registry

https://us.ohaus.com/en-US/Products/Balances-Scales/Portable-Balances/CS-Series/CS200P

OHAUS CS lightweight, portable, compact balance for use in laboratory, industrial, education and home use applications. CS offers great value without sacrificing accuracy for weighing jobs of 200g to 5000g.

Proper citation: OHAUS: CS200P Portable Balance (RRID:SCR_022536) Copy   

•   Source: SciCrunch Registry

https://www.npielectronic.com/product/pdes-module/

Pneumatic drug ejection. Used to apply ionic and non-ionic substances in small amounts. Locally precise application with microJECT pipette holder with built-in valve. Also available as 19″ stand alone device.

Proper citation: NPI: Pressure Application Module (RRID:SCR_022657) Copy   

•   Source: SciCrunch Registry

https://www.antibodysociety.org/the-airr-community/airr-data-commons/

Network of distributed repositories that adhere to standards set out by AIRR Community. This collection contains standards and repositories either created by the AIRR community or approved for use within AIRR community.

Proper citation: AIRR Data Commons (RRID:SCR_022597) Copy   

•   Source: SciCrunch Registry

https://www.u-toyama.ac.jp/

Japanese national university in Toyama Prefecture established in 1949. University of Toyama has three campuses, namely Gofuku, Sugitani, and Takaoka campuses.

Proper citation: University of Toyama; Toyama; Japan (RRID:SCR_022751) Copy   

•   Source: SciCrunch Registry

https://docs.airr-community.org/en/stable/miairr/introduction_miairr.html

Checklist of minimally required information that we recommend journals adopt, and that could form requirements for submission to public data repository. AIRR sequencing studies apply high throughput sequencing technologies to profile B cell receptors (BCRs) and T cell receptors (TCRs). Standards were developed by AIRR Community Minimal Standards Working Group.

Proper citation: Minimal information about Adaptive Immune Receptor Repertoires (RRID:SCR_022596) Copy   

•   Source: SciCrunch Registry