TOOLS and Databases
List of our cryo-EM Modeling Tools and DatabasesRecent Updates
Nov 3, 2023 : Tutorial Video from DAQ & DeepMainmast Workshop is made available at our lab channel.
June 6, 2023 : EM Tool Server is online.
May 1, 2023 : DAQ-Score Database is released!
EM Map Analysis
DAQ Score
An Advanced Computational Tool for Local Quality Estimation of Protein Models from EM Maps Using Deep Learning
Emap2Sec+
An Advanced Deep Learning Tool for Identifying Protein Secondary Structures and Nucleic Acids in Medium-to-Low Resolution EM Maps.
Emap2Sec
An Advanced Deep Learning Tool for Accurately Identifying Protein Secondary Structures in Medium-to-Low Resolution EM Maps.
MainMast_Seg
A Tool for Directly Segmenting Individual Components from EM Maps Using Symmetry Restraints and Minimum Spanning Trees.
EM-GAN
A Computational Tool for More Effective Protein Structure Information Capture Using Deep Learning.
Database
DAQ-Score Database
A Database of Precomputed Residue-Wise Local Quality Scores for Protein Models from Cryo-EM Maps.
EM-SURFER
A web-based tool for real-time comparison and analysis of EM density maps.
Modeling & Refinement
DeepMainMast
A modeling tool that builds protein 3D models from EM maps using deep learning and can assign chain identity to homo-multimers.
CryoREAD
An Advanced Computational Tool for Automatic Building of Full DNA/RNA Atomic Structures from Cryo-EM Maps Using Deep Learning.
DAQ-refine
A Model Refinement tool for Low-quality Regions in a protein structure model by DAQ score and AlphaFold2.
MainMast
A Modeling Tool that directly traces main-chain connections and C-alpha positions by using Tree-Graph models.
VESPER
Map-map fitting Tool for Accurate Superimposition of EM Maps Using Mean Shift Algorithm and FFT.
EM Tool Server
EM Tool Server
cryo-READ, Emap2sec+, DeepMainmast, VESPER are available on kiharalab server.
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