Daniel:Notebook/GenomeMiner/2013-7-31: Difference between revisions
Jump to navigation
Jump to search
>Djacobse No edit summary |
>Djacobse No edit summary |
||
Line 3: | Line 3: | ||
[[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
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: