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Full Discussion: Merging multiple files from multiple columns
Top Forums Shell Programming and Scripting Merging multiple files from multiple columns Post 302716471 by bartman2099 on Tuesday 16th of October 2012 12:19:53 PM
Old 10-16-2012
Merging multiple files from multiple columns
Hi guys,
I have very basic linux experience so I need some help with a problem.
I have 3 files from which I want to extract columns based on common fields between them.

File1:
Code:
--- rs74078040 NA 51288690 T G 461652 0.99223 0.53611 3
--- rs77209296 NA 51303525 T G 461843 0.98973 0.60837 3
--- rs7985170 NA 51304203 C T 461852 0.99215 0.541 3

File2:
Code:
id rsid chromosome pos allele_A allele_B index average_call info
--- rs74078040 NA 51288690 T G 461652 0.99852 0.52725 2
--- rs77209296 NA 51303525 T G 461843 0.99992 0.90562 2
--- rs7985170 NA 51304203 C T 461852 0.99994 0.93283 2
--- rs145780716 NA 19032912 G A 2054321 0.9988 0.026123 2

File3:
id rsid chromosome pos allele_A allele_B index average_call info
Code:
--- rs74078040 NA 51288690 T G 461652 0.956 0.8558 1
--- rs77209296 NA 51303525 T G 461843 0.9843 0.8989 1
--- rs7985170 NA 51304203 C T 461852 0.9323 0.6754 1
--- rs145780716 NA 19032912 G A 2054321 0.9098 0.7632 1

I want to take all the rows from File1 and say columns 1-7 (which are the same in all the files) and then add column 8 from File 2 and columns 9 and 10 from File3.
Note that File1 doesn't have a header but the other files do. Also, File1 has less lines than the other files which have the same number of lines.

The output would look like:
Code:
--- rs74078040 NA 51288690 T G 461652 0.99852 0.8558 1
--- rs77209296 NA 51303525 T G 461843 0.99992 0.8989 1
--- rs7985170 NA 51304203 C T 461852 0.99994 0.6754 1

Any help would be greatly appreciated.
Thanks!
Last edited by Franklin52; 10-17-2012 at 06:12 AM.. Reason: Please use code tags for data and code samples
 

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LEARN ABOUT CENTOS

locale::codes::langfam

Locale::Codes::LangFam(3)				User Contributed Perl Documentation				 Locale::Codes::LangFam(3)

NAME

       Locale::Codes::LangFam - standard codes for language extension identification

SYNOPSIS

	  use Locale::Codes::LangFam;

	  $lext = code2langfam('apa');		       # $lext gets 'Apache languages'
	  $code = langfam2code('Apache languages');    # $code gets 'apa'

	  @codes   = all_langfam_codes();
	  @names   = all_langfam_names();

DESCRIPTION

       The "Locale::Codes::LangFam" module provides access to standard codes used for identifying language families, such as those as defined in
       ISO 639-5.

       Most of the routines take an optional additional argument which specifies the code set to use. If not specified, the default ISO 639-5
       language family codes will be used.

SUPPORTED CODE SETS

       There are several different code sets you can use for identifying language families. A code set may be specified using either a name, or a
       constant that is automatically exported by this module.

       For example, the two are equivalent:

	  $lext = code2langfam('apa','alpha');
	  $lext = code2langfam('apa',LOCALE_LANGFAM_ALPHA);

       The codesets currently supported are:

       alpha
	   This is the set of three-letter (lowercase) codes from ISO 639-5 such as 'apa' for Apache languages.

	   This is the default code set.

ROUTINES

       code2langfam ( CODE [,CODESET] )
       langfam2code ( NAME [,CODESET] )
       langfam_code2code ( CODE ,CODESET ,CODESET2 )
       all_langfam_codes ( [CODESET] )
       all_langfam_names ( [CODESET] )
       Locale::Codes::LangFam::rename_langfam  ( CODE ,NEW_NAME [,CODESET] )
       Locale::Codes::LangFam::add_langfam  ( CODE ,NAME [,CODESET] )
       Locale::Codes::LangFam::delete_langfam  ( CODE [,CODESET] )
       Locale::Codes::LangFam::add_langfam_alias  ( NAME ,NEW_NAME )
       Locale::Codes::LangFam::delete_langfam_alias  ( NAME )
       Locale::Codes::LangFam::rename_langfam_code  ( CODE ,NEW_CODE [,CODESET] )
       Locale::Codes::LangFam::add_langfam_code_alias  ( CODE ,NEW_CODE [,CODESET] )
       Locale::Codes::LangFam::delete_langfam_code_alias  ( CODE [,CODESET] )
	   These routines are all documented in the Locale::Codes::API man page.

SEE ALSO

       Locale::Codes
	   The Locale-Codes distribution.

       Locale::Codes::API
	   The list of functions supported by this module.

       http://www.loc.gov/standards/iso639-5/id.php
	   ISO 639-5 .

AUTHOR

       See Locale::Codes for full author history.

       Currently maintained by Sullivan Beck (sbeck@cpan.org).

COPYRIGHT

	  Copyright (c) 2011-2013 Sullivan Beck

       This module is free software; you can redistribute it and/or modify it under the same terms as Perl itself.

perl v5.16.3							    2013-02-27						 Locale::Codes::LangFam(3)
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