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http://www.cbs.dtu.dk/services/RNAmmer/
Software package to predict ribosomal RNA genes in full genome sequences by utilising two levels of Hidden Markov Models. Consistent and rapid annotation of ribosomal RNA genes.
Proper citation: RNAmmer (RRID:SCR_017075) Copy
https://github.com/greenhouselab/Veta
Software suite of functions for EMG data visualization and processing. Open source Matlab toolbox for electromyography combined with transcranial magnetic stimulation. MATLAB toolbox for the collection, analysis, and visualization of EMG and TMS.
Proper citation: VETA (RRID:SCR_017201) Copy
https://github.com/llawas/Rice_HxD_Recovery_Metabolomics
Software tool as source code used in analysis of GC MS data from rice samples. Workflow for statistical analysis of GC MS data from field grown rice collected during rewatering after exposure to combined drought and heat stress.
Proper citation: Rice_HxD_Recovery_Metabolomics (RRID:SCR_017204) Copy
Software for 3D reconstruction from serial slices. Used to create 3D model to analyse organs, tissues and cells, create photos and videos to help scientists in life science, biology and medicine, visualize, analyze and exploit information from serial slices and get accurate quantitative information from reconstructed 3D models.
Proper citation: BioViz3D (RRID:SCR_017162) Copy
https://github.com/dodomorandi/hatspil
Software Python tool for high throughput sequencing analysis, focused on high reliability, modularity and customisability.
Proper citation: HaTSPiL (RRID:SCR_017059) Copy
https://bioportainer.github.io/BioPortainer/
Open source software designed in modular way, aimed at facilitating user interaction with Docker environments in three different computational layers like infrastructure, platform and application.
Proper citation: BioPortainer (RRID:SCR_017058) Copy
Software R package for calculating, applying, evaluating and plotting results of polygenic risk scores analysis. Performs simulation study to estimate P value significance threshold for high resolution PRS studies and produces plots for inspection of results. Operating Unix/Linux.
Proper citation: PRSice (RRID:SCR_017057) Copy
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
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
https://www.bmh.manchester.ac.uk/research/facilities/bioinformatics/
Core provides assistance in integrative analysis of genomic datasets to support faculty.
Proper citation: University of Manchester Bioinformatics Core Facility (RRID:SCR_017171) Copy
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
https://github.com/Frederik-D-Weber/cosleep
Software Python tool for sleep EEG analysis. Used for Closed and Open loop in Slow Ocillations, Sleep Stimulation in Auditory or Recording in full PSG using OpenBCI Cyton.
Proper citation: COsleep (RRID:SCR_017053) Copy
https://diabetes.med.umich.edu/partners/michigan-diabetes-research-center-mdrc
Multidisciplinary unit of the University of Michigan funded by the National Institute of Diabetes and Digestive and Kidney Diseases/National Institute of Health. Promotes new discoveries and enhance scientific progress through the support of basic and clinical research related to diabetes, its complications, and related disorders. Creates environment that supports innovative research; attracts and retains early stage investigators and investigators new to diabetes research; provides core services that leverage funding and unique expertise; fosters interdisciplinary collaborations; raises awareness and interest in fundamental and clinical diabetes research at their institutions, as well as locally, regionally, and nationally.
Proper citation: Michigan Diabetes Research Center (RRID:SCR_015112) Copy
Statistical software for ROC curve analysis. MedCalc performs several statistical tests such as method comparison, method evaluation, reference intervals, and meta-analysis.
Proper citation: MedCalc (RRID:SCR_015044) Copy
This resource is not available. Documented on October 6, 2020.Software for the analysis of mass spectrometry data. MassHunter also works with software-specific packages to do more specialized analysis tasks.
Proper citation: Agilent Masshunter Quantitative Analysis software (RRID:SCR_015040) Copy
Image acquisition and analysis software suite for Hamamatsu imaging devices. Hamamatsu Photonics imaging system for microscopy.
Proper citation: HCImage (RRID:SCR_015041) Copy
http://www.mybiosoftware.com/seaview-4-2-12-sequence-alignment-phylogenetic-tree-building.html
Graphical user interface for multiple sequence alignment and molecular phylogeny. SeaView also generates phylogenetic trees.
Proper citation: SeaView (RRID:SCR_015059) Copy
Data analysis tool that utilizes the Comparative CT (ddCT) method to rapidly and accurately quantitate relative gene expression across a large number of genes and samples. Raw input from plates or arrays can be analyzed according to user-determined settings.
Proper citation: DataAssist (RRID:SCR_014969) Copy
https://sourceforge.net/projects/soapdenovo2/files/GapCloser/
Module of SOAPdenovo2 commonly used independently to close gaps in genome assemblies.
Proper citation: GapCloser (RRID:SCR_015026) Copy
Website resource for researchers to order and send Drosophilia specimens to each other. This community-driven supplier also works with the FlyBase Drosophilia database to search for synonyms for fly species.
Proper citation: Drososhare (RRID:SCR_014976) Copy
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