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on page 1 showing 20 out of 452 results from 1 sources

Cite this (499 fROI atlas, RRID:SCR_014756)

URL: http://findlab.stanford.edu/functional_ROIs.html

Resource Type: Resource, atlas, data or information resource

Atlas of functional ROIs (fROIs) containing 499 regions, with extensive gray matter coverage. Atlases are available for download directly from the website.

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Cite this (4D Atlases Construction, RRID:SCR_002227)

URL: http://www.med.unc.edu/bric/ideagroup/free-softwares/4d-atlases-construction

Resource Type: Resource, software resource

Software package for constructing longitudinal atlases, which are the necessary steps for many brain-related applications.

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Cite this (7T Structural MRI scans ATAG, RRID:SCR_014084)

URL: http://www.nitrc.org/projects/atag_mri_scans/

Resource Type: Resource, data set, atlas, data or information resource

Data sets from the atlasing of the basal ganglia (ATAG) consortium, which provides ultra-high resolution 7Tesla (T) magnetic resonance imaging (MRI) scans from young, middle-aged, and elderly participants. They include whole-brain and reduced field-of-view MP2RAGE and T2 scans with ultra-high resolution at a sub millimeter scale. The data can be used to develop new algorithms that help building new high-resolution atlases both in the basic and clinical neurosciences. They can also be used to inform the exact positioning of deep-brain electrodes relevant in patients with Parkinsons disease and neuropsychiatric diseases.

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Cite this (90 fROI atlas, RRID:SCR_014757)

URL: http://findlab.stanford.edu/functional_ROIs.html

Resource Type: Resource, atlas, data or information resource

Atlas of functional ROI's, including individual networks (auditory network, sensorimotor network, etc.). Atlases of individual networks and combined networks are available for download directly from the website.

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    ABACAS

Cite this (ABACAS, RRID:SCR_015852)

URL: http://abacas.sourceforge.net

Resource Type: Resource, software resource, software application

Software that contiguates (align, order, orientate), visualizes and designs primers to close gaps on shotgun assembled contigs based on a reference sequence. ABACAS finds alignment positions and identifies syntenies of assembled contigs against the reference, then generates a pseudomolecule taking overlapping contigs and gaps into account.

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Cite this (AIDA Toolkit, RRID:SCR_005914)

URL: https://adaptivedisclosure.wordpress.com/aida/

Resource Type: Resource, software resource, software toolkit, data access protocol, web service

A generic set of components that can perform a variety of tasks, such as learn new pattern recognition models, perform specialized search on resource collections, and store knowledge in a repository. W3C standards are used to make data accessible and manageable with semantic web technologies such as OWL, RDF(S), and SKOS. The AIDA Toolkit is directed at groups of knowledge workers that cooperatively search, annotate, interpret, and enrich large collections of heterogeneous documents from diverse locations. The server offers services for: text indexing and statistics, metadata storage and querying, thesaurus reasoning, annotation, text retrieval, spelling correction, synonym detection, and model learning.

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    AIMLESS

Cite this (AIMLESS, RRID:SCR_015747)

URL: http://www.ccp4.ac.uk/html/aimless.html

Resource Type: Resource, software resource, software application, data processing software

Data processing software for x-ray diffraction data. AIMLESS scales together multiple observations of reflections, and merges multiple observations into an average intensity.

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    Albacore

Cite this (Albacore, RRID:SCR_015897)

URL: https://github.com/dvera/albacore

Resource Type: Resource, software resource, software application, data processing software

Data processing basecaller for the Oxford Nanopore sequencer that identifies DNA sequences directly from raw data. It enhances accuracy of the single-read sequence data, contributing to high consensus accuracy for nanopore sequence data.

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Cite this (Allen Cell Types Database, RRID:SCR_015719)

URL: http://celltypes.brain-map.org/

Resource Type: Resource, data or information resource, database

Database of neuronal cell types based on multimodal characterization of single cells to enable data-driven approaches to classification.

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Cite this (Analysis and Annotation Tool (AAT) Package, RRID:SCR_014658)

URL: http://aatpackage.sourceforge.net/

Resource Type: Resource, software resource, software application, data analysis software, data processing software

Genome tool for analyzing and annotating large genomic sequences containing introns. It includes a program for comparing the query sequence with a protein database and another for comparing the query with a cDNA database. The database search program identifies regions of the query sequence that are similar to a database sequence. Then the alignment program constructs an optimal alignment for each region and the database sequence, as well as reports the coordinates of exons in the query sequence. Pairwise alignments of the query sequence with protein and cDNA database sequences are combined into multiple sequence alignments, which provide a view of all protein and cDNA sequences matching a query region.

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Cite this ( AnaMorph, RRID:SCR_015012)

URL: https://github.com/NeuroBox3D/AnaMorph

Resource Type: Resource, software resource, source code

Framework for creating 3D neuronal morphologies from point/diameter descriptions.

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    ANDES

Cite this (ANDES, RRID:SCR_002791)

URL: http://andestools.sourceforge.net/

Resource Type: Resource, software resource, software application, data analysis software, data processing software, software toolkit

Software library and a suite of applications, written in Perl and R, for deep sequencing statistical analyses.

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Cite this (AnimalTracker, RRID:SCR_014397)

URL: http://animaltracker.elte.hu/

Resource Type: Resource, software resource, software application, data analysis software, data processing software

A universal tracking application specifically designed to support animal behavioral analysis. AnimalTracker consists of three main modules which can be used independently: Tracker is responsible for image processing and providing the coordinates of the identified object; Zone Designer provides tools to create custom-made investigation areas in order to design a maze-setup; and Tracking Analyzer module serves to define and obtain the parameters needed for the evaluation.

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Cite this (AnimatLab, RRID:SCR_014252)

URL: http://animatlab.com/

Resource Type: Resource, software resource, software application, simulation software

A software tool that combines biomechanical simulation and biologically realistic neural networks to create realistic models of, and perform tests on, biomechanical workings. AnimatLab was primarily designed to model and test the operation of neural circuits that might produce behavior patterns observed in an intact animal. Users can create an animalistic or robotic body and place it in a virtual environment with physics that are accurate and realistic. Users can then design a nervous system that controls the behavior of the body within the physically realistic environment. Various models for different types of actions, builds, and movements are available.

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Cite this (ApE (A plasmid Editor) , RRID:SCR_014266)

URL: http://biologylabs.utah.edu/jorgensen/wayned/ape/

Resource Type: Resource, software resource, software application, standalone software

Software for plasmid and sequence editing with an assortment of features. Its core features include: highlighting restriction sites in the editing window; accurately reflecting Dam/Dcm blocking of enzyme sites; highlighting and drawing graphic maps using feature annotations from genbank and embl files; highlighting text using pre-defined and custom feature libraries; and directly BLASTing selected sequence at NCBI or Wormbase.

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Cite this (Artifact Detection Tools, RRID:SCR_005994)

URL: http://web.mit.edu/swg/software.htm

Resource Type: Resource, image analysis software, data processing software, software application, software resource, software toolkit, image processing software

Toolbox for post-processing fMRI data. Includes software for comprehensive analysis of sources of artifacts in timeseries data including spiking and motion. Most compatible with SPM processing, but adaptable for FSL as well. * Operating System: MacOS, Windows, Linux * Programming Language: MATLAB * Supported Data Format: ANALYZE

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    ASaiM

Cite this (ASaiM, RRID:SCR_015878)

URL: http://asaim.readthedocs.io

Resource Type: Resource, software resource, software application, data analysis software, data processing software

Software that analyzes intestinal microbiota data. This environment is composed of a framework to process and analyze microbiota data from raw sequences to taxonomic and functional assignations.

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    ATSAS

Cite this (ATSAS, RRID:SCR_015648)

URL: https://www.embl-hamburg.de/biosaxs/software.html

Resource Type: Resource, software resource, software toolkit, data processing software, software application

Software toolkit for small-angle scattering data analysis from biological macromolecules.

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Cite this (AutoAssemblyD, RRID:SCR_001087)

URL: http://sourceforge.net/projects/autoassemblyd/

Resource Type: Resource, software resource, data processing software, data analysis software, sequence analysis software, software application

Software which performs local and remote genome assembly by several assemblers based on an XML Template which can replace the large command lines required by most assemblers.

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Cite this (Autodesk Meshmixer, RRID:SCR_015736)

URL: http://www.meshmixer.com

Resource Type: Resource, data processing software, software application, data visualization software, 3d visualization software, software resource, authoring tool

3D visualization software for working with triangle meshes. This software also can clean up 3D scans, design objects for 3D printing, and perform other 3D design-related functions.

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