Question: Sliding Window To Get Average Of A Seq Reads
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gravatar for shamsher jagat
6.0 years ago by
United States
shamsher jagat590 wrote:
I have a bacterial genome which I divided into bins of 5 bp and counted reads in each bin. Now I want to use a sliding window of say 100 bp and count the average. Is there any option in Galaxy that I can do it I have bed file of data. Thanks Kanwar
galaxy • 971 views
ADD COMMENTlink modified 6.0 years ago by Jennifer Hillman Jackson25k • written 6.0 years ago by shamsher jagat590
0
gravatar for Jennifer Hillman Jackson
6.0 years ago by
United States
Jennifer Hillman Jackson25k wrote:
Hi Kanwar, This appears to be related to your latter question, but if not, please let us know. The "Make window" tool is a good choice for breaking up intervals and a tools such as "Line/Word/Character count" and "Compute" in the Text Manipulation group can compute some simple statistics on datasets and lines of data. The tool "Join, Subtract and Group -> Group" may also be helpful. Best, Jen Galaxy team -- Jennifer Jackson http://galaxyproject.org
ADD COMMENTlink written 6.0 years ago by Jennifer Hillman Jackson25k
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