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pdb4amber

PDB analyzer and fixer for Amber simulations

pdbtools

Tool(s) for cleaning, munging and analysing PDB files for structural bioinformatics analysis.

placevent

Placevent - 3D-RISM-based solvent and ion placement software

plip

Protein-Ligand Interaction Profiler - Analyze and visualize non-covalent protein-ligand interactions in PDB files

pmesh

Particle Mesh in Python

pocket-ubuntu-kernel

Pocket-Ubuntu-kernel4.12

probableconfig

prolif

Protein-Ligand Interaction Fingerprints

protein-shop

Protein Shop 3d tool to design/manipulate proteins

protein-shop-vagrant

A bare-minimum Vagrant and Chef setup for ProteinShop.

proteins

Intel Stuff

proteinshopreal

psychtoolbox-3

Psychophysics Toolbox Version 3 (PTB-3) is a free set of Matlab and GNU Octave functions for vision and neuroscience research.

pulseeffects-presets

Collection of PulseEffects presets

pylj

Implement Lennard-Jones in Python

pymp

Easy, OpenMP style multiprocessing for Python on Unix.

pypackmol

Python wrapper for packmol molecule packing program

pyrelion-scripts

Scripts for Relion written in Python and using pyrelion class to parse STAR files

pyrod

PyRod - Tracing water molecules in molecular dynamics simulations

pysed

GNU Sed like Python3 module, to do basic text manipulation functions.

python-science

slides + IPython notebooks for the Stony Brook University "Python for Scientific Computing" class.

python-torque

My python module wrapping the Torque queue system

python_ebook

python_template

A starting template for Python programs

pytorch-tutorial

Build your neural network easy and fast

qvina

Accurately speed up AutoDock Vina

reduce

Reduce - tool for adding and correcting hydrogens in PDB files

retropie-setup

Shell script to set up a Raspberry Pi/Odroid/PC with RetroArch emulator and various cores

s2i2

Code and other materials for the S2I2 Software Summer School

scientific-python-lectures

Lectures on scientific computing with python, as IPython notebooks.