vcf-isec(1) [debian man page]

VCF-ISEC(1)							   User Commands						       VCF-ISEC(1)

NAME

       vcf-isec - create intersections, unions, complements on bgzipped and tabix indexed VCF or tab-delimited files

SYNOPSIS

       vcf-isec [OPTIONS] file1.vcf file2.vcf ...

DESCRIPTION

       About: Create intersections, unions, complements on bgzipped and tabix indexed VCF or tab-delimited files.

	      Note that lines from all files can be intermixed together on the output, which can yield unexpected results.

OPTIONS

       -C, --chromosomes <list|file>
	      Process the given chromosomes (comma-separated list or one chromosome per line in a file).

       -c, --complement
	      Output positions present in the first file but missing from the other files.

       -d, --debug
	      Debugging information

       -f, --force
	      Continue even if the script complains about differing columns.

       -o, --one-file-only
	      Print only entries from the left-most file. Without -o, all unique positions will be printed.

       -n, --nfiles [+-=]<int>
	      Output positions present in this many (=), this many or more (+), or this many or fewer (-) files.

       -p, --prefix <path>
	      If present, multiple files will be created with all possible isec combinations. (Suitable for Venn Diagram analysis.)

       -t, --tab <chr:pos:file>
	      Tab-delimited file with indexes of chromosome and position columns. (1-based indexes)

       -w, --win <int>
	      In  repetitive  sequences, the same indel can be called at different positions. Consider records this far apart as matching (be it a
	      SNP or an indel).

       -h, -?, --help
	      This help message.

EXAMPLES

	      bgzip file.vcf; tabix -p vcf file.vcf.gz bgzip file.tab; tabix -s 1 -b 2 -e 2 file.tab.gz

vcf-isec 0.1.5							     July 2011							       VCF-ISEC(1)

Text::vCard::Addressbook(3pm)				User Contributed Perl Documentation			     Text::vCard::Addressbook(3pm)

NAME

       Text::vCard::Addressbook - a package to parse, edit and create multiple vCards (RFC 2426)

SYNOPSIS

	 use Text::vCard::Addressbook;

	 my $address_book = Text::vCard::Addressbook->new({
	       'source_file' => '/path/to/address.vcf',
	 });

	 foreach my $vcard ($address_book->vcards()) {
	       print "Got card for " . $vcard->fullname() . "
";
	 }

DESCRIPTION

       This package provides an API to reading / editing and creating multiple vCards. A vCard is an electronic business card. This package has
       been developed based on rfc2426.

       You will find that many applications (Apple Address book, MS Outlook, Evolution etc) can export and import vCards.

READING IN VCARDS

   load()
	 use Text::vCard::Addressbook;

	 # Read in from a list of files
	 my $address_book = Text::vCard::Addressbook->load( ['foo.vCard', 'Addresses.vcf']);

       This method will croak if it is unable to read in any of the files.

   import_data()
	 $address_book->import_data($value);

       This method imports data directly from a string.

   new()
	 # Read in from just one file
	 my $address_book = Text::vCard::Addressbook->new({
	       'source_file' => '/path/to/address.vcf',
	 });

       This method will croak if it is unable to read in the source_file.

	 # File already in a string
	 my $address_book = Text::vCard::Addressbook->new({
	       'source_text' => $source_text,
	 });

	 # Create a new address book
	 my $address_book = Text::vCard::Addressbook->new();

       Looping through all vcards in an address book.

	 foreach my $vcard ($address_book->vcards()) {
	       $vcard->...;
	 }

METHODS

   add_vcard()
	 my $vcard = $address_book->add_vcard();

       This method creates a new empty Text::vCard object, stores it in the address book and return it so you can add data to it.

   vcards()
	 my $vcards = $address_book->vcards();
	 my @vcards = $address_book->vcards();

       This method returns a reference to an array or an array of vcards in this address book. This could be an empty list if there are no entries
       in the address book.

   set_encoding()
	 $address_book->add_vcard('utf-8');

       This method will add the string ';charset=utf-8' to each and every vCard entry. That does help in connection with e.g. an iPhone...

   export()
	 my $vcf_file = $address_book->export()

       This method returns the vcard data in the vcf file format.

       Please note there is no validation, you must ensure that the correct nodes (FN,N,VERSION) are already added to each vcard if you want to
       comply with RFC 2426.

       This might not escape the results correctly at the moment.

AUTHOR

       Leo Lapworth, LLAP@cuckoo.org

COPYRIGHT

       Copyright (c) 2003 Leo Lapworth. All rights reserved.  This program is free software; you can redistribute it and/or modify it under the
       same terms as Perl itself.

ACKNOWLEDGEMENTS

       The authors of Text::vFile::asData for making my life so much easier.

SEE ALSO

       Text::vCard, Text::vCard::Node

perl v5.10.1							    2011-01-11					     Text::vCard::Addressbook(3pm)