Curator Dashboard

Software toolkit for biological sequence analysis and -presentation combined into a single binary. It is used for genome analysis, efficient processing of structured genome annotations and contains binaries for sequence and annotation handling, sequence compression, index structure generation and access, annotation visualization.

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• SciCrunch
• 9 years ago - submitted by Isabella Froman

Software application for visualizing output data from molecular dynamics simulations. It can be customized to read almost any input file format, animate it, and output images of each frame.

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• SciCrunch
• 9 years ago - submitted by Isabella Froman

Software application for visualization and editing of biomolecules. Used for the investigation of membrane proteins, visualization of other proteins and geometric objects, and analysis of protein sequences.

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• SciCrunch
• 9 years ago - submitted by Isabella Froman

Software application for inferring phylogenetic trees and analysis of molecular sequence data using the maximum-likelihood criterion. It implements nucleotide, amino acid and codon-based models of sequence evolution.

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• SciCrunch
• 9 years ago - submitted by Isabella Froman

Software application which provides a graphical interface to build, view and analyze atomic structures. It provides a graphical interface to study atomic structures, to prepare images for presentations, and teach the atomic structure of matter.

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• SciCrunch
• 9 years ago - submitted by Isabella Froman

Software application as a single-core implementation of frequency-based substring mining. It can be used in bioinformatics to extract substrings that discriminate two (or more) datasets inside high-throughput sequencing data.

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• SciCrunch
• 9 years ago - submitted by Isabella Froman

Software for a statistical multiple sequence alignment algorithm which uses a "distance-based" approach to align homologous protein, RNA or DNA sequences. The GUI, MAD (Multiple Alignment Display), can display the intermediate alignments produced by FSA, where each character is colored according to the probability that it is correctly aligned.

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• SciCrunch
• 9 years ago - submitted by Isabella Froman

Alignment software for large-scale protein contact or protein-protein interaction prediction optimized for speed through shorter runtimes. FreeContact provides the opportunity to compute contact predictions in any environment (desktop or cloud).

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• SciCrunch
• 9 years ago - submitted by Isabella Froman

Standalone C library as well as a command-line tool for assembling Illumina short reads in small regions. It is an overlap-based assembler used in sequencing to retain heterozygous events and to assemble diploid regions for the purpose of variant calling.

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• SciCrunch
• 9 years ago - submitted by Isabella Froman

Software package that sorts data into groups, shuffles the order of data, and computes descriptive statistics based on the data. These FILe and stream Operations can be used independently or together.

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• SciCrunch
• 9 years ago - submitted by Isabella Froman

Database and index for huge amounts of small files. Files are stored concatenated in one big data file, with second file contains plain text index, giving name, offset and length of small files.

• SciCrunch
• 9 years ago - submitted by Isabella Froman

Software toolkit consisting of MATLAB and Bash scripts for intracranial electrode localization/visualization. It maps electrodes to various anatomical and functional atlases, and overlays electrode data over functional neuroimaging data. Software for intracranial electrode localization and visualization.

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• RRID-Legacy
• 9 years ago - by Anonymous

Software toolkit of Matlab functions for analyzing and visualizing large numbers of t-tests performed on event-related potential data. The toolbox supports within-subject and between-subject t-tests with false discovery rate controls and control of the family-wise error rate via permutation tests.

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• RRID-Legacy
• 9 years ago - by Anonymous

Software that generates container-based behavioral experiments for reproducible science. It offers a library of experiments, games, and surveys, support for multiple kinds of databases, and robust documentation for the provided tools.

• RRID-Legacy
• 9 years ago - submitted by Vanessa Sochat

Modeling software for flow cytometry histograms. Models for cell-tracking dye studies and synchronized cell lines are built right into the software.

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• RRID-Legacy
• 9 years ago - by Anonymous

Organizational software that supports exposure of executables and metadata for discoverability. The software includes a known filesystem structure, a definition for a set of environment variables describing it, and functions for generation of the variables and interaction with the libraries, metadata, and executables located within.

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• SciCrunch
• 9 years ago - by Anonymous

Software toolkit of MATLAB functions that conduct data analysis of MEG and EEG data. It performs tasks such as EEG and MEG forward calculations, inverse calculations, power and coupling measures, decomposition, statistics, and visualization.

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• NIF
• 9 years ago - submitted by Matt Travers

Software that combines reference and assembled transcriptomes for RNA-Seq analysis. It replaces many manual steps in the pipeline of RNA-Seq analyses involving species with incomplete genome or annotations.

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• SciCrunch
• 9 years ago - submitted by Nadia Davidson

Hardware that is a miniature headstage (without casing) for in-vivo experiments in freely moving animals'.

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• RRID-Legacy
• 9 years ago - by Anonymous

Algorithm for spike detection and sorting that uses wavelets and super-paramagnetic clustering. It generates an unsupervised solution, but this can be modified according to the experimenters’ preference for semi-automatic sorting.

• SciCrunch
• 9 years ago - submitted by Isabella Froman