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Full Discussion: Average of a columns from three files
Top Forums Shell Programming and Scripting Average of a columns from three files Post 303003114 by RavinderSingh13 on Thursday 7th of September 2017 02:43:01 PM
Old 09-07-2017
Quote:
Originally Posted by nans
Revisiting this post. Can we condition the command to say,
go through first two columns in each of the three files and if it matches (assuming the files are not in the same order) or even present in a single file (out of three), print the average of the 8th columns in the first file ?
Code:
==> File1 <==
1    115829313    115829313    G    A    0.500    6,7    13    99
1    20977000    20977000    A    C    1.00    0,17    17   45

==> File2 <==
1    20977000    20977000    A    C    1.00    0,15    15    45
1    115829313    115829313    G    A    0.500    7,7    14    99

==> File3 <==
1    115829313    115829313    G    A    0.500    7,10    17    99
1    209897000    209897000    T    C    1.00    0,16    16    48

Code:
==> Results <==
1    115829313    115829313    G    A    0.500    6,7    13    99   14.66
1    20977000    20977000    A    C    1.00    0,17    17   45   16
1    209897000    209897000    T    C    1.00    0,16    16    48   16

Thank you
Hello nans,

Could you please try following and let me know if this helps you.
Code:
awk '
FNR==NR && FNR==1{
   first_file=FILENAME
}
FNR==1 && val{
   close(val)
}
FNR==NR{
   val=FILENAME;
   c[$2,$3]=$0;
   d[$2,$3]++;
   a[$2,$3]+=$8;
   b[$2,$3]++;
   next
}
!b[$2,$3]++{
   c[$2,$3]=$0
}
{
   d[$2,$3]++;
   a[$2,$3]+=$8;
   val=FILENAME
}
END{
   for(i in c){
       print c[i],(a[i]/d[i])
}
}
' SUBSEP=" " File1 File2  File3

Above will only print the output on terminal, if you want to put the output into first Input_file1 named File1 then you could change print c[i],(a[i]/d[i]) to print c[i],(a[i]/d[i]) > first_file.

Thanks,
R. Singh
Last edited by RavinderSingh13; 09-07-2017 at 03:45 PM.. Reason: Added statement for adding output into first File1.
This User Gave Thanks to RavinderSingh13 For This Post:
nans
 

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