Ludovic Autin

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cellPACK assembles computational models of the biological mesoscale, an intermediate scale (10-100 nm) between molecular and cellular biology scales. cellPACK's modular architecture unites existing and novel packing algorithms to generate, visualize and analyze comprehensive three-dimensional models of complex biological environments that integrate data(More)
The Protein Movie Generator (PMG) is an online service able to generate high-quality pictures and animations for which one can then define simple storyboards. The PMG can therefore efficiently illustrate concepts such as molecular motion or formation/dissociation of complexes. Emphasis is put on the simplicity of animation generation. Rendering is achieved(More)
The uPy Python extension module provides a uniform abstraction of the APIs of several 3D computer graphics programs (called hosts), including Blender, Maya, Cinema 4D, and DejaVu. A plug-in written with uPy can run in all uPy-supported hosts. Using uPy, researchers have created complex plug-ins for molecular and cellular modeling and visualization. uPy can(More)
As knowledge of individual biological processes grows, it becomes increasingly useful to frame new findings within their larger biological contexts in order to generate new systems-scale hypotheses. This report highlights two major iterations of a whole virus model of HIV-1, generated with the cellPACK software. cellPACK integrates structural and systems(More)
(a) (b) (c) (d) Figure 1: The workflow of our method for a model of HIV surrounded with blood plasma proteins. (a) The entire dataset is shown. The blood serum (shown in red) is occluding the virus. (b) Clipping objects are added to selectively clip molecules to reveal the HIV capsid. (c) The illustrator decides to show more of the matrix proteins (shown in(More)
Protein docking studies how proteins combine with each other in 3d, in order to better understand their biological functions. The basic hypothesis of the french research projet CoR-SAIRe is that Virtual Reality (VR) multimodal interactions can increase efficiency in reaching docking solutions. To this end, we have conducted an ergonomic analysis of the(More)
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