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on page 1 showing 20 out of 840 results

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 (ABC Bacterial Transporter Systems Database, RRID:SCR_016617)

URL: https://bioinformatics.niaid.nih.gov/abctransporter/

Resource Type: Resource, data or information resource, database

Collection of classified bacterial ATP-binding cassette (ABC) transporter systems. The transporter systems identified fulfill the three roles characterized by the nucleotide-binding domain (NBD) , transmembrane domain (TMD), and solute-binding protein (SBP) domains.

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Cite this (ABCDreport, RRID:SCR_016030)

URL: https://github.com/ABCD-STUDY/ABCDreport

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

Software application as a simple system to review study progress. Used in ABCD study.

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Cite this (AbundantOTU+, RRID:SCR_016527)

URL: http://omics.informatics.indiana.edu/AbundantOTU/

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

Software tool for analysis of large 16S rRNA pyrosequences by using a consensus alignment algorithm, utilizing the sequence redundancy of abundant species in the pyrosequence dataset.

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    ACQ4

Cite this (ACQ4, RRID:SCR_016444)

URL: http://www.acq4.org/

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

Python-based software for experimental neurophysiology. It includes support for patch-clamp electrophysiology, multiphoton imaging, scanning laser photostimulation, and many other experimental techniques.

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    Aegean

Cite this (Aegean, RRID:SCR_015965)

URL: http://standage.github.io/AEGeAn

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

Software toolkit for the analysis and evaluation of genome annotations. The toolkit includes a variety of analysis programs, e.g. for comparing distinct sets of gene structure annotations (ParsEval), computation of gene loci (LocusPocus) and more.

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    Aevol

Cite this (Aevol, RRID:SCR_015966)

URL: http://www.aevol.fr/

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

Simulation software for experimental evolution of microorganisms. Aevol is a digital genetics model for the study of structural variations of the genome (e.g. number of genes, synteny, proportion of coding sequences).

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    AFIDs

Cite this (AFIDs, RRID:SCR_016623)

URL: https://github.com/jclauneuro/afids

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

Software tool as an open framework for evaluating correspondence between magnetic resonance images of the human brain using fiducial placement.

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    AfterQC

Cite this (AfterQC, RRID:SCR_016390)

URL: https://github.com/OpenGene/AfterQC

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

Software that performs automatic filtering, trimming, error removing, and quality control for fastq data.

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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 (Alien-hunter, RRID:SCR_015967)

URL: http://www.sanger.ac.uk/science/tools/alien-hunter

Resource Type: Resource, software resource, software application

Software for the prediction of putative Horizontal Gene Transfer (HGT) events with the implementation of Interpolated Variable Order Motifs (IVOMs). The predictions (embl format) can be automatically loaded into Artemis genome viewer.

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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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    ALTER

Cite this (ALTER, RRID:SCR_015968)

URL: http://sing.ei.uvigo.es/ALTER/

Resource Type: Resource, image analysis software, data analysis software, data processing software, alignment software, software application, sequence analysis software, web application, software resource

Web application to perform program-oriented conversion of DNA and protein alignments and transform between multiple sequence alignment formats. ALTER focuses on the specifications of mainstream alignment and analysis programs rather than on the conversion among more or less specific formats.

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    AMAP

Cite this (AMAP, RRID:SCR_015969)

URL: http://code.google.com/p/amap-align/

Resource Type: Resource, image analysis software, data processing software, source code, alignment software, software application, software resource

Source code that performs multiple alignment of peptidic sequences. It utilizes posterior decoding and a sequence-annealing alignment, instead of the traditional progressive alignment method.

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