Question: Please Explain Window Size and Step Size
0
gravatar for crcarroll
13 months ago by
crcarroll40
crcarroll40 wrote:

Hi,

In regards to a sliding window analysis, can someone explain and differentiate the concepts of "window size" and "step size"?

Thank you

sequencing mapping alignment • 1.5k views
ADD COMMENTlink modified 13 months ago by Ram32k • written 13 months ago by crcarroll40
2
gravatar for Ram
13 months ago by
Ram32k
Baylor College of Medicine, Houston, TX
Ram32k wrote:

A sliding window analysis has two components: sliding and window. "Window size" is the size of the window, which is the length of the sequence you're looking at each time in the analysis. "Step size" is the size of the "sliding" action, which is the length of sequence you move between each window.

For example, in the sequence "MARY HAD A LITTLE LAMB", if window size = 3 and step size = 5,

MARY HAD A LITTLE LAMB

MAR___________________ #window-1

12345HAD______________ #window-2

1234512345 LI_________ #window-3

123451234512345LE ____ #window-4

12345123451234512345MB #window-5
ADD COMMENTlink written 13 months ago by Ram32k

Very clear explanation. Thank you very much for taking the time!

ADD REPLYlink written 13 months ago by crcarroll40
0
gravatar for Pierre Lindenbaum
13 months ago by
France/Nantes/Institut du Thorax - INSERM UMR1087
Pierre Lindenbaum134k wrote:
position=0;
while(position< chromosome_length) {
      do_something_between(position,position+window_size);
      position = position + step_size;
     }
ADD COMMENTlink written 13 months ago by Pierre Lindenbaum134k
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