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Command line application to generate contact matrix from proteins (3D)
A protein contact matrix is 2D representation of the distances between amino acid residues in a 3D protein structure. Protein Contact MapGenerator (PCMGen) is a command line tool which takes protein 3D structures (PDB format files) as input and computes contact distances between two chains (from single or two different proteins). These matrix files can be further visualised as Contact Maps using other visualization tools/ programs (like R-heatmaps).
Contact Maps can be used to understand proteins' :
1. ...
Platform independend, multithreaded fractal generator. Fine control over thread/CPU usage; unlimited precision; smooth/random/function coloring; supports color map files (over 1600 available); many image file formats. For any Java 1.5+ (32/64 Bit) VM.