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https://smog-server.org/smog2/OpenSMOG/

Software library that enables use of structure based SMOG models of biopolymers with OpenMM.

Proper citation: OpenSMOG (RRID:SCR_022551) Copy   

•   Source: SciCrunch Registry

https://edspace.american.edu/openbehavior/project/modular-led-displays/

Provides customized display systems used in neuroscientific studies in insects and other small animals. System includes custom built modular LED panels and software. LED panels of various sizes can be arranged/grouped in different shapes for diverse setups. System provides millisecond refresh, precise synchronization, customizable color combinations, and varied display configurations and addresses most technical challenges of small animal vision experiments and is thoroughly documented for replicability.

Proper citation: Modular LED Displays project (RRID:SCR_022704) Copy   

•   Source: SciCrunch Registry

https://datasus.saude.gov.br/informacoes-de-saude-tabnet/

Portal to find all informations about epidemiology regarding public and suplementary health in Brazil.

Proper citation: TABNET (RRID:SCR_022668) Copy   

•   Source: SciCrunch Registry

https://www.biomerieux-usa.com/clinical/nuclisens-easymag

System for total nucleic acid extraction from variety of sample types and volumes. System automates enhanced magnetic silica version of bioMérieux’s proprietary BOOM technology gold standard for universal extraction of RNA and DNA.Clinical use includes nucleic acid extraction in front of molecular infectious disease assays, molecular oncology assays, molecular genetics assays.

Proper citation: BioMerieux: NucliSens easyMAG system (RRID:SCR_022666) Copy   

•   Source: SciCrunch Registry

https://github.com/mueller-lab/PyFRAP

Software Python package for FRAP analysis. Simulation based analysis software that makes use of PDE simulations to analyze FRAP experiments in 3D geometries. Used to assess molecular diffusion.

Proper citation: PyFRAP (RRID:SCR_022665) Copy   

•   Source: SciCrunch Registry

https://github.com/holmescao/ANTS_marking_and_analysis_tools

Software tool for marking ant motion trajectories dataset from video. Provided marking software, three data quality analysis scripts, and tracking performance evaluation tool.

Proper citation: ANTS marking and analysis tools (RRID:SCR_022543) Copy   

•   Source: SciCrunch Registry

https://github.com/mueller-lab/PyFDAP

Software tool as automated analysis of fluorescence decay after photoconversion (FDAP) experiments.

Proper citation: PyFDAP (RRID:SCR_022664) Copy   

•   Source: SciCrunch Registry

https://ibidi.com/chemotaxis-analysis/171-chemotaxis-and-migration-tool.html?gclid=CjwKCAjwu5yYBhAjEiwAKXk_eOEiTG2oTzme7pgYbZus8ZBKhu4S8YCWwlbQdQLdcOTWx4xTJ83T4xoCcVYQAvD_BwE

Software tool for data analysis from time stack chemotaxis experiments. Based on NIH ImageJ image processing system.

Proper citation: Chemotaxis and Migration Tool (RRID:SCR_022708) Copy   

•   Source: SciCrunch Registry

http://www.swissdock.ch/

Web service to predict molecular interactions that may occur between target protein and small molecule. Protein small molecule docking web service based on EADock DSS.

Proper citation: SwissDock (RRID:SCR_022564) Copy   

•   Source: SciCrunch Registry

https://github.com/zdk123/SpiecEasi

Software R package for microbiome network analysis. Used for inference of microbial ecological networks from amplicon sequencing datasets. Combines data transformations developed for compositional data analysis with graphical model inference framework that assumes underlying ecological association network is sparse.

Proper citation: SpiecEasi (RRID:SCR_022712) Copy   

•   Source: SciCrunch Registry

https://github.com/jmchandonia/CORAL

Software tool as framework for rigorous self validated data modeling and integrative, reproducible data analysis.

Proper citation: CORAL (RRID:SCR_022711) Copy   

•   Source: SciCrunch Registry

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