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Top Forums Shell Programming and Scripting Using tr, sed or awk to delete text from nth column only Post 302552277 by hlwright on Friday 2nd of September 2011 07:59:19 AM
Old 09-02-2011
Yes that has worked, but unfortunately I seem to have lost the formatting of my file now. I think it was tab delimited before, now it just has a blank space between columns, and my next process wont accept this.

Helen

Before:
PHP Code:
1329_105_1480_F3        355     chr1    13484   1       50M     =       13572   123     CAGCTGCACCACTGCCTGGCGCTGTGCCCTTCCTTTGCTCTGCCCGCTGG      ,,@NPYG423BC553AC.2BPB;:7OH0.-=><1,I3!5=D<4)-OD=44      NM:i:0  NH:i:4  CC:Z:chr12      CP:i:92080      XS:A:+  HI:i:0
1863_1224_411_F3        99      chr1    13484   3       50M     
=       13572   123     CAGCTGCACCACTGCCTGGCGCTGTGCCCTTCCTTTGCTCTGCCCGCTGG      UUZ_[][VXY[XRNOYJFURZZULJZ_ZOQ[SRRTW@CPBJHJWU\FAMM      NM:i:0  NH:i:2  CC:Z:chr2       CP:i:114357483  XS:A:+  HI:i:
After:
PHP Code:
1329_105_1480 355 chr1 13484 1 50M 13572 123 CAGCTGCACCACTGCCTGGCGCTGTGCCCTTCCTTTGCTCTGCCCGCTGG ,,@NPYG423BC553AC.2BPB;:7OH0.-=><1,I3!5=D<4)-OD=44 NM:i:0 NH:i:4 CC:Z:chr12 CP:i:92080 XS:A:+ HI:i:0
1863_1224_411 99 chr1 13484 3 50M 
13572 123 CAGCTGCACCACTGCCTGGCGCTGTGCCCTTCCTTTGCTCTGCCCGCTGG UUZ_[][VXY[XRNOYJFURZZULJZ_ZOQ[SRRTW@CPBJHJWU\FAMM NM:i:0 NH:i:2 CC:Z:chr2 CP:i:114357483 XS:A:+ HI:i:
 

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