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https://plexon.com/products/plexon-v-probe/
Linear electrode array used for intracranial electrophysiological recordings. V-Probe is multi-use, multi-site, linear electrode with recording sites positioned on side of sharpened, symmetric cone by Plexon Inc. Minimizes trauma to brain tissue upon insertion. Durable, highly customizable, and often used in acute research with medium to large animals.
Proper citation: Plexon: 16 channel V-Probe (RRID:SCR_018784) Copy
Website for study pre-registration. Defines minimum required criteria for pre-registration and allows authors to pre-register their study. It is standardized pre-registration that requires only what is necessary to separate exploratory from confirmatory analyses.
Proper citation: AsPredicted (RRID:SCR_018789) Copy
https://plexon.com/products/headstages/
Headstage that attaches to 16-channel linear electrode arrays by Plexon Inc. Digitizes analog voltage signals and outputs them to data acquisition systems.
Proper citation: Plexon: 16-channel digital headstage (RRID:SCR_018783) Copy
http://crdd.osdd.net/raghava/algpred/
Web tool for prediction of allergens based on similarity of known epitope with any region of protein. Used for prediction of allergenic proteins and mapping of IgE epitopes.
Proper citation: AlgPred (RRID:SCR_018780) Copy
Functional gene pipeline and repository. Functional gene repository provides collections of genes in interactive platform, while functional gene pipeline offers suite of tools for functional gene amplicon processing and analysis. Together they enable key steps in functional gene based microbial community analysis, from target selection and primer analysis to amplicon processing and ecological discovery.
Proper citation: FunGene (RRID:SCR_018749) Copy
Software tool to construct 3D models of soft tissue using CT-like cross sectional imaging.
Proper citation: syngo DynaCT (RRID:SCR_018902) Copy
Web service that conducts comprehensive literature mining to identify roles of genes in addiction. Searches PubMed to find abstracts containing genes of interest and list of curated addiction related keywords.
Proper citation: RatsPub (RRID:SCR_018905) Copy
https://github.com/HicServices/BadMedicine
Software library and command line tool for generating realistic looking synthetic Electronic Health Records data for testing purposes.
Proper citation: BadMedicine (RRID:SCR_018879) Copy
https://mcguinlu.shinyapps.io/robvis/
Software R package and web app, which facilitates rapid production of publication quality risk of bias assessment figures. Used to produce high quality figures that summarize the risk-of-bias assessments performed as part of systematic review or research synthesis project.
Proper citation: robvis (RRID:SCR_018755) Copy
Axio Imager 2 resolves samples from tissue sections in pathology to brain specimens in neuroscience to multi dyed FISH specimens. Works with ZEN imaging software.
Proper citation: Zeiss: Axio Imager 2 (RRID:SCR_018876) Copy
https://github.com/ylab-hi/ScanITD
Open source software Python tool for detecting internal tandem duplication with variant allele frequency estimation.
Proper citation: ScanITD (RRID:SCR_018886) Copy
https://rosie.graylab.jhu.edu/docking2
Unified web framework for Rosetta applications. Web interface for selected Rosetta protocols. Web front end for Rosetta software suite. Provides common user interface for Rosetta protocols, stable application programming interface for developers to add additional protocols, flexible back-end to allow leveraging of computer cluster resources shared by Rosetta Commons member institutions, and centralized administration by Rosetta Commons to ensure continuous maintenance. Offers general and speedy paradigm for serverification of Rosetta applications. Lowers barriers to Rosetta use for broader biological community.
Proper citation: ROSIE (RRID:SCR_018764) Copy
Web application for data storage and analysis to explore brain tumors datasets from Chinese cohorts. Data portal for storage and interactive exploration of multi-dimensional functional genomic data that includes primary and recurrent glioma samples from Chinese cohorts. Allows users to browse DNA mutation profile, mRNA/microRNA expression profile and methylation profile, and to do correlation and survival analysis in specific glioma subtype.
Proper citation: Chinese Glioma Genome Atlas (RRID:SCR_018802) Copy
http://faculty.ucr.edu/~mmaduro/random.htm
Web application to generate random DNA sequences.
Proper citation: Random DNA Sequence Generator (RRID:SCR_018768) Copy
https://github.com/davidebolo1993/TRiCoLOR
Command line application for tandem repeats profiling from error prone long read sequencing data. Works on data from Oxford Nanopore Technologies and Pacific Biosciences sequencers. Used on whole genome alignments.
Proper citation: TRiCoLOR (RRID:SCR_018801) Copy
Pulse generator that can hold 8 different pre-programmed paradigms all of which can use up to all 8 channels.
Proper citation: A.M.P.I.: Master 8 stimulator (RRID:SCR_018889) Copy
https://beikolab.cs.dal.ca/software/STAMP
Open source software package for analyzing taxonomic or metabolic profiles that promotes best practices in choosing appropriate statistical techniques and reporting results. Graphical software package that provides statistical hypothesis tests and exploratory plots for analyzing taxonomic and functional profiles. Supports tests for comparing pairs of samples or samples organized into two or more treatment groups.
Proper citation: STAMP (RRID:SCR_018887) Copy
http://tools.dice-database.org/GOnet/)
Web tool for interactive Gene Ontology analysis of any biological data sources resulting in gene or protein lists.
Proper citation: GOnet (RRID:SCR_018977) Copy
Peristaltic pump with flow rate 0.06 to 3400 mL/min, three digit LED display, reversible motor, LED indicators to confirm motor direction and speed range from 6 to 600 rpm.
Proper citation: Cole-Parmer: Masterflex L/S Variable Speed Digital Drive with Remote I/O peristaltic pump (RRID:SCR_019028) Copy
http://www.mrc-cbu.cam.ac.uk/methods-and-resources/toolboxes/license/
Software Matlab toolbox to perform representational similarity analysis for neural data.
Proper citation: Toolbox for Representational Similarity Analysis (RRID:SCR_019029) Copy
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