Data management/Annotation software tools | Cryo-electron microscopy image analysis
Find and compare the best bioinformatics software tools for navigating, sharing and collaboratively annotating massive image data sets of biological specimens acquired by cryo-electron microscopy. Tools are ranked by the biomedical research community.
An open-source, rich web environment to enable highly collaborative analysis of multi-gigapixel imaging data. Cytomine (i) provides remote and collaborative principles, (ii) relies on data models that allow to easily organize and semantically annotate imaging datasets in a standardized way, (iii) efficiently supports high-resolution multi-gigapixel images, (iv) provides mechanisms to readily proofread and share image quantifications produced by machine learning-based image recognition algorithms.
Assists users in the fitting and building of atomic models. CCP-EM was developed to provides support for individual scientists to a coherent cryoEM community. It can aid scientists in their use of cryoEM software. It also supports software developers in producing and disseminating robust and user-friendly programs. This application provides generic tools for manipulating and visualizing image and volume data.
Offers an assortment of functions for processing images through the Blender’s software. NeuroMorph_Other Tools includes five features for (i) producing 3D image stacks, (ii) handling children of an object, (iii) facilitating import of objects in Blender, (iv) normalizing files according to a convention and (v) importing IMOD meshes into the software. The program is part of the NeuroMorph suite.
Manipulates 3D images stacks. NeuroMorph_3D Drawing is a Blender’s plugin enables to: (i) position spherical markers on images, (ii) trace lines on both open and closed surfaces images. It also includes a functionality for assisting users in either performing exploration or connectivity analysis on items involving hidden objects in the scene. The application is part of the NeuroMorph software.
A multi-user web-based collaborative management system for images and volumes which allows users to view multi-terabyte datasets, annotate images with their own annotation schema, and summarize the results. Viking has several key features. (1) It works over the internet using HTTP and supports many concurrent users limited only by hardware. (2) It supports a multi-user, collaborative annotation strategy. (3) It cleanly demarcates viewing and analysis from data collection and hosting. (4) It is capable of applying transformations in real-time. (5) It has an easily extensible user interface, allowing addition of specialized modules without rewriting the viewer.
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