I am trying to extract the tag alignment strand & direction from a novoalign native output.
Not sure it's possible in this form, but alternatively is this something I can extract from a SAM formated output?
EX. novoalign native output:
I know the F and R represent alignment direction, but is that without regard to which strand the tag aligned to?
Not sure it's possible in this form, but alternatively is this something I can extract from a SAM formated output?
EX. novoalign native output:
PHP Code:
@HWUSI-EAS1533_0017_FC:4:1:1962:934#0/1 S NGCCACCAGGGAACACAGTGGTGCCCAGAAGCTGGG (445588888@@@@@:::::::::::7:33:<:<:@ U 36 23 >chr3_13530 3306 F . . . 34T>G
@HWUSI-EAS1533_0017_FC:4:1:2011:940#0/1 S NACAGACCTCCCCTTTCCCACCAGCCCCAGAGGCCC #################################### QC
@HWUSI-EAS1533_0017_FC:4:1:2157:930#0/1 S NGTCCCCATGTGTATTGAACTGGCACAAACTAAACT '2/2355555@@@@@@@@@@@@@@@:::::@@@@@@ U 6 108 >chr7_10986 10565 F . . .
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