Searching the RRID Resource Information Network
Are you sure you want to leave this community? Leaving the community will revoke any permissions you have been granted in this community.
SciCrunch Registry is a curated repository of scientific resources, with a focus on biomedical resources, including tools, databases, and core facilities - visit SciCrunch to register your resource.
http://www.gelifesciences.co.kr/wp-content/uploads/2016/08/IN-Cell-Developer-Toolbox-v1.9.pdf
Image analysis software for developing new cellular assay analysis routines. This software provides a selection of advanced segmentation, pre-processing and post-postprocessing tools.
Proper citation: INCell Developer Toolbox (RRID:SCR_015790) Copy
http://asipro.software.informer.com/
An image analysis software.
Proper citation: ASIPro (RRID:SCR_014547) Copy
http://www.tissuegnostics.com/en/products/analysing-software/tissuequest
Image analysis software for cells and stained areas in samples stained with immunofluorescent markers.
Proper citation: TissueQuest Analysis Software (RRID:SCR_014822) Copy
Software used to analyze and quantify images stained with multiple fluorophores in vitro or in vivo. It can output both image and value outputs.
Proper citation: SMIA-CUKIE (RRID:SCR_014795) Copy
Project that aims to standardize Hemoglobin A1c test results to those of the Diabetes Control and Complications Trial (DCCT) and United Kingdom Prospective Diabetes Study (UKPDS) which established the direct relationships between HbA1c levels and outcome risks in patients with diabetes.
Proper citation: National Glycohemoglobin Standardization Program (RRID:SCR_015885) Copy
https://bitbucket.org/nicofmay/basta-bayesian-structured-coalescent-approximation/src/master/
Software package as Bayesian method to infer migration from genetic data. Implemented in BEAST2 that combines accuracy of methods based on structured coalescent with computational efficiency required to handle more than few populations.
Proper citation: BASTA (RRID:SCR_017303) Copy
https://scienceofbehaviorchange.org/about/
Repository for behavioral science measures that have been validated or are in process of being validated in accordance with SOBC Experimental Medicine Approach.
Proper citation: Science of Behavior Change Research Network (RRID:SCR_017385) Copy
http://alan-hadley.software.informer.com/
A software used to process stacks of digital images. All of the resulting images are processed to have the same dimensions and then are consolidated into a single image.
Proper citation: CombineZP (RRID:SCR_014567) Copy
A data center that develops evaluated mass spectral libraries and provides related software tools that assist compound identification by providing reference mass spectra for GC/MS (by electron ionization) and LC-MS/MS (by tandem mass spectrometry). It also provides gas phase retention indices for GC. Resources include the mass spectral library, the peptide library, and a standard refernece material guide.
Proper citation: NIST Mass Spectrometry Data Center (RRID:SCR_014680) Copy
https://edspace.american.edu/openbehavior/project/optimouse/
Project related to individual mice positions analysis, specifically their nose positions. Includes software tool for analysis of mouse position data designed by Hebrew University scientists. Provides open source software to analyze positions of individual mice, specifically their nose positions, in behavioral arena with the goal of minimizing error.
Proper citation: Optimouse project (RRID:SCR_021463) Copy
https://github.com/Brazelton-Lab/seq-annot
Software Python package for annotating and counting genomic features in genomes and metagenomes. Software tools to facilitate annotation and comparison of genomes and metagenomes.
Proper citation: seq-annot (RRID:SCR_018731) Copy
https://usa.jpk.com/news/2011/directoverlay-display-analysis-software-from-jpk-instruments
Software package for display of light microscopy images together with atomic force microscopy images.
Proper citation: DirectOverlay (RRID:SCR_018978) Copy
https://github.com/TransDecoder/TransDecoder
Software tool to identify candidate coding regions within transcript sequences, such as those generated by de novo RNA-Seq transcript assembly using Trinity, or constructed based on RNA-Seq alignments to genome using Tophat and Cufflinks.Starts from FASTA or GFF file. Can scan and retain open reading frames (ORFs) for homology to known proteins by using BlastP or Pfam search and incorporate results into obtained selection. Predictions can then be visualized by using genome browser such as IGV.
Proper citation: TransDecoder (RRID:SCR_017647) Copy
https://spikeforest.flatironinstitute.org
Software reproducible, continuously updating platform which benchmarks performance of spike sorting codes across large curated database of electrophysiological recordings with ground truth. Website and open source computing framework for evaluating and comparing spike sorting algorithms for neurophysiology data analysis. Project of Center for Computational Mathematics at Flatiron Institute.
Proper citation: SpikeForrest (RRID:SCR_019261) Copy
Software tool designed by Data Coordination Platform of Human Cell Atlas to process single-cell RNAseq data generated by Smart-seq2 assays.Processes stranded or unstranded, paired- or single-end, scRNA-seq data from an individual cell.
Proper citation: Smart-seq2 Single Sample Pipeline (RRID:SCR_021228) Copy
https://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1005095
Software tool to describe spatial patterns in degrees of inhomogeneity and to incorporate intensity based correction to analyze images with wide range of resolutions. Can be used to assess protein and lipid patterns, quantifying distribution changes and spatial reorganization at cell surface.
Proper citation: QuASIMoDOH (RRID:SCR_018708) Copy
Benchtop genetic analyzer. Electrophoresis system for DNA and RNA sample quality control. It can be used for next generation sequencing or Biobank workflow.
Proper citation: Agilent: 4200 TapeStation System (RRID:SCR_018435) Copy
https://github.com/zhengkaiyu/FIMAS
Software tool to perform basic and specific analysis procedures on fluorescent microscopy and fluorescent lifetime imaging microscopy data. Requires MATLAB with image processing and statistical toolboxes. Can import fluorescent data from Olympus, Biorad, Femtonics, TIFF, Excel, ASCII files.
Proper citation: Fluorescent Imaging Analysis Software FIMAS (RRID:SCR_018311) Copy
https://github.com/caleblareau/mgatk
Software python-based command line interface for processing .bam files with mitochondrial reads and generating high-quality heteroplasmy estimation from sequencing data. This package places a special emphasis on mitochondrial genotypes generated from single-cell genomics data, primarily mtscATAC-seq, but is generally applicable across other assays.
Proper citation: mgatk (RRID:SCR_021159) Copy
https://edspace.american.edu/openbehavior/project/boris/
Project related to computer based review of previously recorded videos or live observations. Related to study of animal and human behavior. Provides open source, multiplatform standalone program that allows user specific coding environment for computer based review of previously recorded videos or live observations.Developed by scientists from University of Turin.
Proper citation: Behavioral Observation Research Interactive Software project (RRID:SCR_021434) Copy
Can't find your Tool?
We recommend that you click next to the search bar to check some helpful tips on searches and refine your search firstly. Alternatively, please register your tool with the SciCrunch Registry by adding a little information to a web form, logging in will enable users to create a provisional RRID, but it not required to submit.
Welcome to the RRID Resources search. From here you can search through a compilation of resources used by RRID and see how data is organized within our community.
You are currently on the Community Resources tab looking through categories and sources that RRID has compiled. You can navigate through those categories from here or change to a different tab to execute your search through. Each tab gives a different perspective on data.
If you have an account on RRID then you can log in from here to get additional features in RRID such as Collections, Saved Searches, and managing Resources.
Here is the search term that is being executed, you can type in anything you want to search for. Some tips to help searching:
You can save any searches you perform for quick access to later from here.
We recognized your search term and included synonyms and inferred terms along side your term to help get the data you are looking for.
If you are logged into RRID you can add data records to your collections to create custom spreadsheets across multiple sources of data.
Here are the sources that were queried against in your search that you can investigate further.
Here are the categories present within RRID that you can filter your data on
Here are the subcategories present within this category that you can filter your data on
If you have any further questions please check out our FAQs Page to ask questions and see our tutorials. Click this button to view this tutorial again.
