Curator Dashboard

Simulation software tool that performs comprehensive predictive science application for for small molecules.

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

Portal for platforms available to conduct and compete in challenges aiming to improve scientific progress. Challenges allow researchers to share their research and problems with other subject matter experts for collaborative progress.

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

Source code for a soma segmentation method suitable for datasets with touching soma distributions. The method contains three main parts: soma detection based on DT and local maximum searching and refining; an improved Rayburst sampling algorithm for isolated and touching soma surface detection; and ellipsoid fitting to generate the segmentation results.

• RRID-Legacy
• 9 years ago - submitted by David Kennedy

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

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

Software that translates nucleic acid sequences to their corresponding peptide sequences. It can translate to the three forward and three reverse frames, and output multiple frame translations at once.

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

Software that performs peptide identification by scoring MS/MS spectra against peptides derived from a protein sequence database.

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

Software tool that can match tandem mass spectra with peptide sequences, in process known as protein identification. Database search engine for matching tandem mass spectra with protein sequences. Command line tool for matching tandem mass spectra with peptide sequences.

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

Web application for prediction of the presence and location of signal peptide cleavage sites in amino acid sequences from different organisms. The method incorporates a prediction of cleavage sites and a signal peptide/non-signal peptide prediction based on a combination of several artificial neural networks.

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

Web application for combined transmembrane topology and signal peptide prediction. Used for whole genome annotation of signal peptides and transmembrane regions. Predictor is based on hidden Markov model (HMM) that models different sequence regions of signal peptide and different regions of transmembrane protein in series of interconnected states.

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

Simulation software that runs network simulations where the network is specified in its own format called SystemML. The components of the network can be implemented in C, C++, Python or Matlab and are used in SpineML_2_BRAHMS to provide a simulation back-end for SpineML models.

• Resource
• SciCrunch
• 9 years ago - submitted by Sebastian James

Declarative XML based model description language for large scale neural network models. Its syntax is designed primarily for the specification of large scale networks of point neurons but also has the flexibility to describe biologically constrained models consisting of non standard components (such as gap junctions).

• Resource
• SciCrunch
• 9 years ago - submitted by Sebastian James

Simulation software which can execute neural network models specified in the SpineML format (an extension of the INCF's NineML). It is used as the canonical simulator backend by SpineCreator and translates the SpineML specification of the model into object code and a SystemML specification of the network.

• Resource
• SciCrunch
• 9 years ago - submitted by Sebastian James

Search engine for querying novel microbiome samples against a comprehensive database of curated samples. Visibiome accepts rRNA data in the form of BIOM files.

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

Graphical editor software which can be used to create and edit neural network models. Models can be read from, and saved in the SpineML format.

• RRID-Legacy
• 9 years ago - submitted by Sebastian James

Software that creates graphs from brain scan data. ndmg is a 1-click structural connectome estimation pipeline and is the successor of the MRCAP, MIGRAINE, and m2g pipelines.

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• RRID-Legacy
• 9 years ago - by Anonymous

Software toolkit for data-driven validation of neuron and ion channel models using SciUnit. NeuronUnit implements an interface to several simulators and model description languages, handles test calculations according to domain standards, and enables automated construction of tests based on data from several major public data repositories.

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

Graphical user interface for exploring hypotheses of correlations between neural activity in regions of the brain and behavior for Drosophila melanogaster. These correlation hypotheses are the result of our thermogenetic neural activation screen from the Janelia GAL4 collection.

• SciCrunch
• 9 years ago - submitted by Anita Bandrowski

WebGL-based viewer for volumetric data. It is capable of displaying arbitrary (non axis-aligned) cross-sectional views of volumetric data, as well as 3-D meshes and line-segment based models (skeletons).

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• RRID-Legacy
• 9 years ago - submitted by Anita Bandrowski

Software that implements Infomax ICA, which is an algorithm to perform Independent Component Analysis, in CUDA (a parallel computing platform and programming model).

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• RRID-Legacy
• 9 years ago - submitted by Federico Raimondo

Web tool written in R for generation of box plots with R packages shiny, beanplot4, vioplot, beeswarm and RColorBrewer, and hosted on shiny server to allow for interactive data analysis. Data are held temporarily and discarded as soon as session terminates.Represents both summary statistics and distribution of primary data. Enables visualization of minimum, lower quartile, median, upper quartile and maximum of any data set.Data matrix can be uploaded as file or pasted into application. May be downloaded to run locally or as virtual machine for VMware and VirtualBox.

• Resource
• RRID-Legacy
• 9 years ago - submitted by Elcin Unal