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Full Discussion: Joining multiple files based on one column with different and similar values (shell or perl)
Top Forums Shell Programming and Scripting Joining multiple files based on one column with different and similar values (shell or perl) Post 302517621 by seqbiologist on Wednesday 27th of April 2011 09:52:00 AM
Old 04-27-2011
Joining multiple files based on one column with different and similar values (shell or perl)
Hi,

I have nine files looking similar to file1 & file2 below.

Code:
File1:
  1 ABCA1
   1 ABCC8
   1 ABR:N
   1 ACACB
   1 ACAP2
   1 ACOT1
   1 ACSBG
   1 ACTR1
   1 ACTRT
   1 ADAMT
   1 AEN:N
   1 AKAP1

Code:
File2:
   1 A4GAL
   1 ACTBL
   1 ACTL7
   1 ACTR1
   2 ADAMT
   1 AGPAT
   1 AHNAK
   1 AKAP1
   1 AKR1B
   1 AMT:N
   1 AOX1:
   1 APAF1

I would like to obtain a file like this (with either shell or perl?)

Code:
gene    file1    file2    file3 etc 
A4GAL    0    1    ?
ABCA1    1    0    ?
ABCC8    1    0
ABR:N    1    0
ACACB    1    0
ACAP2    1    0
ACOT1    1    0
ACSBG    1    0
ACTL7    0    1
ACTR1    1    1
etc

Unfortunately, I don't have an idea myself so any help is appreciated!

Best wishes, seqbiologist
 

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LEARN ABOUT SUSE

lzdiff

XZDIFF(1)							     XZ Utils								 XZDIFF(1)

NAME

       xzcmp, xzdiff, lzcmp, lzdiff - compare compressed files

SYNOPSIS

       xzcmp [cmp_options] file1 [file2]
       xzdiff [diff_options] file1 [file2]
       lzcmp [cmp_options] file1 [file2]
       lzdiff [diff_options] file1 [file2]

DESCRIPTION

       xzcmp  and  xdiff invoke cmp(1) or diff(1) on files compressed with xz(1), lzma(1), gzip(1), or bzip2(1).  All options specified are passed
       directly to cmp or diff.  If only one file is specified, then the files compared are file1 (which must have a suffix of	a  supported  com-
       pression  format)  and  file1 from which the compression format suffix has been stripped.  If two files are specified, then they are uncom-
       pressed if necessary and fed to cmp(1) or diff(1).  The exit status from cmp or diff is preserved.

       The names lzcmp and lzdiff are provided for backward compatibility with LZMA Utils.

SEE ALSO

       cmp(1), diff(1), xz(1), gzip(1), bzip2(1), zdiff(1)

BUGS

       Messages from the cmp(1) or diff(1) programs refer to temporary filenames instead of those specified.

Tukaani 							    2009-07-05								 XZDIFF(1)
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