Readme.txt
# Website: http://www.igm.jhmi.edu/~eelhaik/Simulation/index.htm

To partition the DNA contig DNA_seq_input.txt
run from Unix environment
./CalculateGCWindow.n DNA_seq_input.txt > DNA_seq_output.txt

Next, from Matlab type:

DjsSegmentation('DNA_seq_output.txt','Djs_segmentation.txt', 32, 128)

and you will get the segmentation in the format of:
From, To, Size, GC%, GC% STD



In a similar manner, run all other files.