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is a software that automatically constructs full-atom 3D structural models of proteins based on cryo-EM density maps and sequence information.

a neural network based algorithm for heterogeneous cryo-EM reconstruction. In particular, the method models a continuous distribution over 3D structures by using a neural network based representation for the volume.

is a model that samples from the approximated equilibrium distribution of structures for a protein monomer, given its amino acid sequence.

a widely used molecular visualization package developed by Warren DeLano, now maintained by Schödinger, LLC. This installation includes official incentive builds of PyMOL.

is a Python package for analysis of AlphaFold protein structure predictions from AlphaFold 2/3, ColabFold, AlphaFold-Multimer, AlphaPulldown, Boltz1, Chai-1, and MassiveFold. It imports prediction outputs into pandas DataFrames, computes structural quality metrics including pDockQ, pDockQ2, LIS, ipSAE, and ipTM-derived measures, and supports visualization, clustering, and model ranking to compare predicted conformations and select high-quality models.

a Python package that streamlines protein-protein interaction screens and high-throughput modelling of higher-order oligomers using AlphaFold-Multimer.

a neural network based algorithm for heterogeneous cryo-EM reconstruction. In particular, the method models a continuous distribution over 3D structures by using a neural network based representation for the volume.

a Python package that streamlines protein-protein interaction screens and high-throughput modelling of higher-order oligomers using AlphaFold-Multimer.

is a plugin for Napari to select a connected component from a Membrain-seg segmentation.

a pipeline of tools to generate robust open mesh surfaces from voxel segmentations of biological membranes using the Screened Poisson algorithm and calculate morphological features including curvature and membrane-membrane distance using pycurv's vector voting framework with tools to convert these morphological quantities into morphometric insights.