08-03-2009
Column problems with vi
Basically I have a very large amount of genetic data in the format
marker_ID Species marker_ID marker_ID Parent1 Parent2 Sex Genotype
As you can see the data I have has marker_ID listed 3 times, I need to get rid of colum one and column three (both titled marker_ID). There are thousands of rows and columns and doing this by hand would probably take me all day.
I need to change the format in order to run this data in Plink, a whole genome association tool.
I have looked at similar posts and I dont think they are relevant as they do not need to delete 2 different columns.
The genotype column is actually over 24,000 columns as that is the genetic information - didnt explain that very well hence first reply
Thanks
Last edited by aistiby; 08-03-2009 at 02:44 PM..
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LEARN ABOUT REDHAT
column
COLUMN(1) BSD General Commands Manual COLUMN(1)
NAME
column -- columnate lists
SYNOPSIS
column [-tx] [-c columns] [-s sep] [file ...]
DESCRIPTION
The column utility formats its input into multiple columns. Rows are filled before columns. Input is taken from file operands, or, by
default, from the standard input. Empty lines are ignored.
The options are as follows:
-c Output is formatted for a display columns wide.
-s Specify a set of characters to be used to delimit columns for the -t option.
-t Determine the number of columns the input contains and create a table. Columns are delimited with whitespace, by default, or with
the characters supplied using the -s option. Useful for pretty-printing displays.
-x Fill columns before filling rows.
Column exits 0 on success, >0 if an error occurred.
ENVIRONMENT
COLUMNS The environment variable COLUMNS is used to determine the size of the screen if no other information is available.
EXAMPLES
(printf "PERM LINKS OWNER GROUP SIZE MONTH DAY HH:MM/YEAR NAME
"
; ls -l | sed 1d) | column -t
SEE ALSO
colrm(1), ls(1), paste(1), sort(1)
HISTORY
The column command appeared in 4.3BSD-Reno.
BSD
June 6, 1993 BSD