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Full Discussion: Average of columns
Top Forums UNIX for Beginners Questions & Answers Average of columns Post 303041788 by nans on Wednesday 4th of December 2019 06:41:30 AM
Old 12-04-2019
Average of columns
I have files that have the following columns

Code:
chr    pos    ref    alt    sample 1    sample 2    sample 3
chr2    179644035    G    A    1,107    0,1    58,67
chr7    151945167    G    T    142,101    100,200    500,700
chr13    31789169    CTT    CT,C    6,37,8    0,0,0    15,46,89
chr22    50962208    T    G    1,107    1,10    0,0
chr23    4373957984    CTT    A,T,G,C    0,1,2,4    0,0,1,3    9,4,6,2


I need to take the average of the values comma separated for each sample rounded to 2 decimal point to have the following output


Code:
chr    pos    ref    alt    sample 1    sample 2    sample 3
chr2    179644035    G    A    54    0.5    62.5
chr7    151945167    G    T    121.5    150    600
chr13    31789169    CTT    CT,C    17    0    50
chr22    50962208    T    G    54    5.5    0
chr23    4373957984    CTT    A,T,G,C    1.75    1    5.25

Any guide in using awk to achieve this will be extremly helpful
Last edited by rbatte1; 12-05-2019 at 09:16 AM..
 

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LEARN ABOUT LINUX

column

COLUMN(1)						    BSD General Commands Manual 						 COLUMN(1)

NAME

     column -- columnate lists

SYNOPSIS

     column [-ntx] [-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.

     -n      By default, the column command will merge multiple adjacent delimiters into a single delimiter when using the -t option; this option
	     disables that behavior. This option is a Debian GNU/Linux extension.

ENVIRONMENT

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

EXIT STATUS

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

EXAMPLES

	   (printf "PERM LINKS OWNER GROUP SIZE MONTH DAY " ; 
	   printf "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.

BUGS

     Input lines are limited to LINE_MAX (2048) bytes in length.

BSD
								   July 29, 2004							       BSD
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