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Full Discussion: awk if one field has more characters than another
Top Forums UNIX for Dummies Questions & Answers awk if one field has more characters than another Post 302683761 by vgersh99 on Wednesday 8th of August 2012 01:04:35 PM
Old 08-08-2012
Quote:
Originally Posted by torchij
Oh ok. I think what I need the difference between two columns. To provide some context the A's and G's are biological genetic mutation data. One column is the reference, and the other is a tumor sample. I am trying to extract all entries where there is an insertion OR deletion of at least 3base pairs (A's G's C's or T's).

The best way to do this is to look at the reference and tumor column and ask if there is at least a difference of 3 letters.
hmmm... my head starts hurtin' a bit......
Code:
nawk 'sqrt((length($3)-length($4))^2) >=3' myfile

Last edited by vgersh99; 08-08-2012 at 02:17 PM..
This User Gave Thanks to vgersh99 For This Post:
torchij
 

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LEARN ABOUT LINUX

colrm

COLRM(1)						    BSD General Commands Manual 						  COLRM(1)

NAME

     colrm -- remove columns from a file

SYNOPSIS

     colrm [start [stop]]

DESCRIPTION

     The colrm utility removes selected columns from the lines of a file.  A column is defined as a single character in a line.  Input is read
     from the standard input.  Output is written to the standard output.

     If only the start column is specified, columns numbered less than the start column will be written.  If both start and stop columns are spec-
     ified, columns numbered less than the start column or greater than the stop column will be written.  Column numbering starts with one, not
     zero.

     Tab characters increment the column count to the next multiple of eight.  Backspace characters decrement the column count by one.

ENVIRONMENT

     The LANG, LC_ALL and LC_CTYPE environment variables affect the execution of colrm as described in environ(7).

EXIT STATUS

     The colrm utility exits 0 on success, and >0 if an error occurs.

SEE ALSO

     awk(1), column(1), cut(1), paste(1)

HISTORY

     The colrm command appeared in 3.0BSD.

BSD
								  August 4, 2004							       BSD
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