MIDST

Github - MIDST-Lab's Github page.

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MD-TASK - Suite of Python scripts that have been developed to analyze molecular dynamics trajectories.
Developed Python scipts fall into 3 categories:
1. Residue Interaction Network (RIN) analysis.
2. Perturmabion Response Scanning
3. Dynamic Cross-Correlation
D.K. Brown, D.L. Penkler, O.S. Amamuddy, C. Ross, A.R. Atilgan, C. Atilgan, O. Tastan Bishop, "MD-TASK: a software suite for analyzing molecular dynamics trajectories" Bioinformatics, 33, 2768-2771 (2017).

MD-TASK Website
MODE-TASK - Collection of tools for analysing normal modes and performing principal component analysis on biological assemblies.

Novel coarse graining techniques allow for analysis of very large assemblies without the need for high performance computing clusters and workstations.

PyMol Plugin

A PyMol Plugin for MODE-TASK has been made available here

Caroline Ross, Bilal Nizami, Michael Glenister, Olivier Sheik Amamuddy, Ali Rana Atilgan, Canan Atilgan, Ozlem Tastan Bishop, "MODE-TASK: Large-scale protein motion tools"

MODE-TASK Website
Machines - List of machines and servers used in the MIDST computational laboratory.

PC, Monitor, and Server List