Daniel:Notebook/GenomeMiner/2013-7-31: Difference between revisions

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[[Daniel:Notebook/GenomeMiner|Back to Calendar]]
[[Daniel:Notebook/GenomeMiner|Back to Calendar]]


Started with the sam file of only mapped reads.  Then printed the third column into text file.
Started with the sam file of [[Daniel:GenomeMiner/2013-7-26|only mapped reads]].  Then printed the third column into text file.


'''Awk third column from SAM'''
'''Awk third column from SAM'''

Revision as of 21:53, 1 August 2013

HL155

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Started with the sam file of only mapped reads. Then printed the third column into text file.

Awk third column from SAM

awk '{print $3}' hrcp_onlymapped > test.txt

Next I used perl to count the reads using this script: