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

Open source video recording system for acquiring video data that is scalable, flexible, and affordable.Utilizes Raspberry Pi (RPi) miniature computer and 8-megapixel Camera Board that allows for greater manipulation of recording parameters. System may be accessed on GitHub.

Proper citation: Pi-based Remote Acquisition Technology for Motion Capture project (RRID:SCR_022325) Copy   

•   Source: SciCrunch Registry
  

https://www.ibm.com/products/structural-equation-modeling-sem

Structural equation modeling software helping support your research and theories by extending standard multivariate analysis methods, including regression, factor analysis, correlation and analysis of variance.

Proper citation: IBM SPSS Amos (RRID:SCR_022686) Copy   

•   Source: SciCrunch Registry
  

https://edspace.american.edu/openbehavior/project/raspi-aud-generator/

Stimulation system for auditory EEG experiments using Raspberry Pi3 B+ board, HiFiBerry audio card to enhance sound quality and trigger tone latency, and custom Python library to generate auditory stimuli.

Proper citation: Raspberry Pi based auditory stimulus generator (RRID:SCR_022343) Copy   

•   Source: SciCrunch Registry
  

https://www.erim.eur.nl/research-support/meta-essentials/

Software tool for meta analysis. Facilitates integration and synthesis of effect sizes from different studies. Consists of set of workbooks designed for Microsoft Excel that automatically produces all required statistics, tables, figures, and more.

Proper citation: Meta Essentials (RRID:SCR_022464) Copy   

•   Source: SciCrunch Registry
  

https://github.com/earnestt1234/SipperViz

Software Python GUI for graphing measures of liquid ingestion in rodents from Sippers. Python GUI for visualizing Sipper data.

Proper citation: SipperViz (RRID:SCR_022463) Copy   

•   Source: SciCrunch Registry
  

https://www.rcon-ndt.com/products/radiography/x-ray-systems/phoenix-nanotom-s/

Nanofocus computed tomography system for applications in material science, precision injection moulding, micromechanics, electronics geology and biology. System includes nanofocus X-ray tube, precision mechanics and advanced software modules. Used for range of 3D CT applications., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025.

Proper citation: GE: Phoenix Nanotom S system (RRID:SCR_022582) Copy   

•   Source: SciCrunch Registry
  

http://splicing.cs.washington.edu/

Web tool to predict effects of sequence variants on alternative splicing. Predicts changes in alternative 5' splice events as well as skipped exon events.

Proper citation: Hexamer Additive Linear (RRID:SCR_022581) Copy   

•   Source: SciCrunch Registry
  

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

Software semi automated brain atlas based analysis pipeline for c-Fos immunohistochemical data. Used to analyze c-Fos in multiple brain regions simultaneously.

Proper citation: Atlas Based Analysis (RRID:SCR_022339) Copy   

•   Source: SciCrunch Registry
  

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

Interactive software for visualizing and uncovering function of circuits created from large scale fruit fly brain data. Interactive computing platform for studying function of executable circuits constructed from fruit fly brain data.

Proper citation: FlyBrainLab (RRID:SCR_022337) Copy   

•   Source: SciCrunch Registry
  

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

Open source, MATLAB based software for forced swim test and tail suspension test video analysis.

Proper citation: DBscorer (RRID:SCR_022334) Copy   

•   Source: SciCrunch Registry
  

http://virtualplant.bio.nyu.edu/cgi-bin/vpweb/

Software platform to support systems biology research. Integrates genomic data and provides visualization and analysis tools for exploration of genomic data. Provides tools to generate biological hypotheses.

Proper citation: VirtualPlant (RRID:SCR_022576) Copy   

•   Source: SciCrunch Registry
  

https://software.broadinstitute.org/cancer/cga/polysolver

Software tool for HLA typing based on whole exome sequencing data and infers alleles for three major MHC class I genes. Enables accurate inference of germline alleles of class I HLA-A, B and C genes and subsequent detection of mutations in these genes using inferred alleles as reference.

Proper citation: Polysolver (RRID:SCR_022278) Copy   

•   Source: SciCrunch Registry
  

https://github.com/mrcgndr/plant_cataloging_workflow

Software workflow for automatized spatio temporal plant positioning based on UAV images.

Proper citation: Plant Cataloging Workflow (RRID:SCR_022276) Copy   

•   Source: SciCrunch Registry
  

https://maayanlab.cloud/sigcom-lincs

Web server that serves over million gene expression signatures processed, analyzed, and visualized from LINCS, GTEx, and GEO. Data and metadata search engine for gene expression signatures.

Proper citation: SigCom LINCS (RRID:SCR_022275) Copy   

•   Source: SciCrunch Registry
  

http://kinefold.curie.fr/

Web service for RNA/DNA folding predictions including pseudoknots and entangled helices.Used for prediction and statistics of pseudoknots in RNA structures using exactly clustered stochastic simulations.

Proper citation: KineFold (RRID:SCR_022273) 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://www2.hhu.de/rna/html/hexplorer_score.php

Web tool for genomic HEXploring allows landscaping of novel potential splicing regulatory elements. Allows landscaping of splicing regulatory regions, provides quantitative measure of mutation effects on splice enhancing and silencing properties and permitts calculation of mutationally most effective nucleotide.

Proper citation: HEXplorer score (RRID:SCR_022269) Copy   

•   Source: SciCrunch Registry
  

http://www.codons.org/calc.html

Software tool for calculating and comparing synonymous codon usage and its impact on protein folding. Used to harmonize codon usage frequencies for heterologous gene expression. Codon usage calculator that evaluates relative usage frequencies of synonymous codons used to encode protein sequence of interest and compares these results to rigorous null mode.Evaluates synonymous codon usage patterns for any coding sequence from any fully sequenced genome.

Proper citation: %MinMax (RRID:SCR_022268) 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
  

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