Curator Dashboard

Cloud-based executable research platform for discovering and running scientific code. Code Ocean is designed to give researchers and developers a way to share, discover and run code published in academic journals and conferences. Users can upload code and data in various programming languages and link working code in a computational environment with the associated article, with Code Ocean assigning a Digital Object Identifier (DOI) to the algorithm.

• Resource
• dkNET
• 10 years ago - submitted by Maryann Martone

De novo sequence assembler that can reconstruct genomic sequences of highly heterozygous diploids from massively parallel shotgun sequencing data., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025.

• Resource
• SciCrunch
• 10 years ago - by Anonymous

Graph-based alignment of next generation sequencing reads to a population of genomes.

• Resource
• SciCrunch
• 10 years ago - by Anonymous

Commercial organization that provides services and products in global healthcare and diagnostics.

• Organization
• SciCrunch
• 10 years ago - submitted by Kristen Jensen

Reference implementation of the Common Workflow Language standards. It provides complete features and tools and comprehensive validation of CWL. The reference implementation consists of two packages. The cwltool package is the primary Python module containing the reference implementation in the cwltool module and console executable by the same name. The cwlref-runner package is optional and provides an additional entry point under the alias cwl-runner, which is the implementation-agnostic name for the default CWL interpreter installed on a host.

• Resource
• SciCrunch
• 10 years ago - submitted by Michael Crusoe

Software toolkit with various functions for the analysis of nucleosome and protein occupancy by sequencing.

• Resource
• SciCrunch
• 10 years ago - submitted by Kristen Jensen

Computer vision and machine learning software library which provides a common infrastructure for computer vision applications. The algorithms within the library can be used to detect and recognize faces, identify objects, classify human actions in videos, track camera movements and moving objects, extract 3D models of objects, produce 3D point clouds from stereo cameras, stitch images together to produce a high resolution image of an entire scene, find similar images from an image database, and follow eye movements, recognize scenery and establish markers to overlay it with augmented reality. It has C++, C, Python, Java and MATLAB interfaces.

• Resource
• SciCrunch
• 10 years ago - submitted by Kristen Jensen

Probabilistic atlas of human white matter tracts/regions underlying several well-known resting state brain networks. The atlas includes group probability maps for each network, as well as each individual tract that are aligned to both the SPM and MRIStudio ICBM templates.

• Resource
• NIF
• 10 years ago - submitted by Matt Travers

Collection of software tools for the computational analysis of brain anatomy with MRI data. It includes automated software tools from surface reconstruction to their mapping via metric optimization in the Laplace-Beltrami embedding space. It is general and can be applied to a wide range of anatomical structures including cortical, sub-cortical, and fiber bundle surfaces.

• Resource
• NIF
• 10 years ago - submitted by Matt Travers

Data set of addiction studies compiled by the NeuroImaging and Analysis Group (NIAG).

• Resource
• NIF
• 10 years ago - submitted by Matt Travers

PANDORA is a Matlab Toolbox for analyzing neuronal electrophysiology data and constructing databases

• RRID-Legacy
• 10 years ago - submitted by Cengiz Gunay

Instrument and software tool used to visualize, trace, analyze, and process white matter fiber tracts of Diffusion Tensor Imaging (DTI) data in real-time. It supports pre-operative surgical planning, post-surgery evaluation, and general evaluation of fiber tracts around tumors and lesions in connection with functional areas.

• Resource
• SciCrunch
• 10 years ago - submitted by Yueling Li

Device for administering transcranial electrical stimulation. It has applications in cranial electrotherapy that provides a weak direct current for non-invasive Interventional Neurophysiology.

• Resource
• RRID-Legacy
• 10 years ago - by Anonymous

Software toolkit that provides several multi-modal tools to assess brain disconnections and remote effects of lesions. All modules are designed to process brain lesion data with a normalization algorithm, a module to estimate the probability and the severity of white matter disconnections, and a tool to build a map of the disconnected areas.

• Resource
• NIF
• 10 years ago - submitted by Matt Travers

Real-time task-based and resting-state fMRI analysis software. This software is developed and distributed to researchers by NeurInsight LLC.

• Resource
• NIF
• 10 years ago - submitted by Matt Travers

Patient database that contains EEG data sets, executable tasks, and computational tools., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025.

• Resource
• NIF
• 10 years ago - submitted by Matt Travers

Project to house templates used to build other projects. It is also known as the NeuroImaging and Analysis Group, which employs various physiological, functional and structural neuroimaging methodologies in both research and clinical domains.

• Resource
• NIF
• 10 years ago - submitted by Matt Travers

Software tool used to generate a list of PubMed IDs to query and generate associations between publications. It utilizes a local SQLite cache in a configurable location to keep a local copy of relevant SRIDs, PMIDs, and the Abstract sections for the PMIDs.

• Resource
• RRID-Legacy
• 10 years ago - submitted by Anita Bandrowski

MATLAB Toolbox which provides a mixed effect model for gene-environment interaction (MixGE) on neuroimaging phenotypes, such as structural volumes and tensor-based morphometry (TBM). This model incorporates both fixed and random effects of genetic-set and environment interaction in order to investigate homogeneous and heterogeneous contributions of sets of genetic variants and their interactions with environmental risks to phenotypes.

• Resource
• NIF
• 10 years ago - submitted by Matt Travers

Software tool for making a BLAST database from various data structures. It maps large sets of next-generation RNA or DNA sequencing runs against a whole genome or transcriptome.

• Resource
• RRID-Legacy
• 10 years ago - submitted by Anita Bandrowski