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Full Discussion: Help with awk Matching columns from two files
Top Forums Shell Programming and Scripting Help with awk Matching columns from two files Post 302741893 by Homa on Monday 10th of December 2012 06:44:53 AM
Old 12-10-2012
Help with awk Matching columns from two files
Hello,
I have two files as following:
Code:
#bin    chrom    chromStart    chromEnd    name    score    strand    observed
585    chr2    29442    29443    rs4637157    0    +    C/T
585    chr2    33011    33012    rs13423995    0    +    A/G
585    chr2    34502    34503    rs13386087    0    +    G/T
585    chr2    36786    36787    rs11900053    0    +    C/T
585    chr2    38937    38938    rs11542478    0    +    A/C
585    chr2    47010    47011    rs6758948    0    +    C/T
585    chr2    47807    47808    rs11897072    0    +    A/G

Code:
#bin    chrom    chromStart    chromEnd    name    score    strand    observed    rsId
585    chr2    12993    12994    SNP_A-1852536    0    +    C/G    rs11127467
585    chr2    53651    53652    SNP_A-2056638    0    +    A/G    rs4438516
585    chr2    59697    59698    SNP_A-1792446    0    +    A/C    rs4499454
585    chr2    74386    74387    SNP_A-2063286    0    -    C/T    rs300770
585    chr2    86643    86644    SNP_A-2260913    0    +    A/C    rs17042545

I want to match the 5th column of the first file with 9th column of the second file and print the lines in common into a separate file.

Thank you!
 

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LEARN ABOUT OSX

locale::codes::langfam

Locale::Codes::LangFam(3pm)				 Perl Programmers Reference Guide			       Locale::Codes::LangFam(3pm)

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) 2011-2012 Sullivan Beck

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

perl v5.16.2							    2012-10-11					       Locale::Codes::LangFam(3pm)
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